Pierrick Roger
| Snapshot Date: 2024-12-19 13:00 -0500 (Thu, 19 Dec 2024) |
| git_url: https://git.bioconductor.org/packages/biodbChebi |
| git_branch: RELEASE_3_20 |
| git_last_commit: e6b963e |
| git_last_commit_date: 2024-10-29 11:04:35 -0500 (Tue, 29 Oct 2024) |
| Back to Multiple platform build/check report for BioC 3.20: simplified long |
|
This page was generated on 2024-12-23 12:04 -0500 (Mon, 23 Dec 2024).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4744 |
| palomino8 | Windows Server 2022 Datacenter | x64 | 4.4.2 (2024-10-31 ucrt) -- "Pile of Leaves" | 4487 |
| merida1 | macOS 12.7.5 Monterey | x86_64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4515 |
| kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4467 |
| Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X | ||||
| Package 202/2289 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| biodbChebi 1.12.0 (landing page) Pierrick Roger
| nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | OK | | ||||||||
| palomino8 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | | ||||||||
| merida1 | macOS 12.7.5 Monterey / x86_64 | OK | OK | OK | OK | | ||||||||
| kjohnson1 | macOS 13.6.6 Ventura / arm64 | OK | OK | OK | OK | | ||||||||
|
To the developers/maintainers of the biodbChebi package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/biodbChebi.git to reflect on this report. See Troubleshooting Build Report for more information. - Use the following Renviron settings to reproduce errors and warnings. - If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information. |
| Package: biodbChebi |
| Version: 1.12.0 |
| Command: F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:biodbChebi.install-out.txt --library=F:\biocbuild\bbs-3.20-bioc\R\library --no-vignettes --timings biodbChebi_1.12.0.tar.gz |
| StartedAt: 2024-12-19 23:22:32 -0500 (Thu, 19 Dec 2024) |
| EndedAt: 2024-12-19 23:28:34 -0500 (Thu, 19 Dec 2024) |
| EllapsedTime: 362.5 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: biodbChebi.Rcheck |
| Warnings: 0 |
##############################################################################
##############################################################################
###
### Running command:
###
### F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:biodbChebi.install-out.txt --library=F:\biocbuild\bbs-3.20-bioc\R\library --no-vignettes --timings biodbChebi_1.12.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory 'F:/biocbuild/bbs-3.20-bioc/meat/biodbChebi.Rcheck'
* using R version 4.4.2 (2024-10-31 ucrt)
* using platform: x86_64-w64-mingw32
* R was compiled by
gcc.exe (GCC) 13.3.0
GNU Fortran (GCC) 13.3.0
* running under: Windows Server 2022 x64 (build 20348)
* using session charset: UTF-8
* using option '--no-vignettes'
* checking for file 'biodbChebi/DESCRIPTION' ... OK
* this is package 'biodbChebi' version '1.12.0'
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking whether package 'biodbChebi' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking files in 'vignettes' ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
ChebiConn 3.85 2.22 82.85
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
Running 'testthat.R'
OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE
Status: OK
biodbChebi.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD INSTALL biodbChebi ### ############################################################################## ############################################################################## * installing to library 'F:/biocbuild/bbs-3.20-bioc/R/library' * installing *source* package 'biodbChebi' ... ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (biodbChebi)
biodbChebi.Rcheck/tests/testthat.Rout
R version 4.4.2 (2024-10-31 ucrt) -- "Pile of Leaves"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: x86_64-w64-mingw32/x64
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
> # vi: fdm=marker
> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbChebi)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbChebi")
biodb.INFO [2024-12-19 23:26:52.839][biodb::testContext]
biodb.INFO [2024-12-19 23:26:52.842][biodb::testContext] ********************************************************************************
biodb.INFO [2024-12-19 23:26:52.844][biodb::testContext] Test context - Generic tests
biodb.INFO [2024-12-19 23:26:52.845][biodb::testContext] ********************************************************************************
biodb.INFO [2024-12-19 23:26:52.847][biodb::testContext]
biodb.INFO [2024-12-19 23:26:52.854][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2024-12-19 23:26:52.857][self$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.20-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2024-12-19 23:26:52.866][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-12-19 23:26:52.867][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-12-19 23:26:52.869][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-12-19 23:26:52.870][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:26:52.872][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:26:52.873][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:26:52.874][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-12-19 23:26:52.914][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-12-19 23:26:52.915][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:26:52.917][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:26:52.918][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:26:52.919][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-12-19 23:26:52.920][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-12-19 23:26:52.921][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:26:52.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:26:52.923][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:26:52.924][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-12-19 23:26:52.926][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-12-19 23:26:52.927][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-12-19 23:26:52.928][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:26:52.929][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:26:52.930][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:26:52.931][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-12-19 23:26:52.933][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-12-19 23:26:52.934][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-12-19 23:26:52.935][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:26:52.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:26:52.937][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:26:52.938][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-12-19 23:26:52.939][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-12-19 23:26:52.941][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:26:52.942][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:26:52.943][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:26:52.944][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-12-19 23:26:52.945][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-12-19 23:26:52.946][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-12-19 23:26:52.947][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:26:52.949][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:26:52.950][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:26:52.951][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-12-19 23:26:52.952][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-12-19 23:26:52.953][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:26:52.954][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:26:52.955][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:26:52.956][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-12-19 23:26:52.958][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-12-19 23:26:52.959][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-12-19 23:26:52.960][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:26:52.961][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:26:52.962][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:26:52.964][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-12-19 23:26:52.965][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-12-19 23:26:52.966][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-12-19 23:26:52.967][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-12-19 23:26:52.969][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-12-19 23:26:52.970][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-12-19 23:26:52.971][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:26:52.972][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:26:52.973][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:26:52.974][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-12-19 23:26:52.976][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-12-19 23:26:52.977][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:26:52.978][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:26:52.979][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:26:52.980][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-12-19 23:26:52.981][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-12-19 23:26:52.983][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:26:52.984][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:26:52.985][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:26:52.986][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-12-19 23:26:52.987][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-12-19 23:26:52.988][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:26:52.989][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:26:52.991][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:26:52.992][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-12-19 23:26:52.993][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-12-19 23:26:52.994][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:26:52.995][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:26:52.996][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:26:52.997][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-12-19 23:26:52.999][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-12-19 23:26:53.000][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:26:53.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:26:53.002][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:26:53.003][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-12-19 23:26:53.004][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-12-19 23:26:53.008][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-12-19 23:26:53.009][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:26:53.011][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:26:53.012][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:26:53.013][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-12-19 23:26:53.014][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-12-19 23:26:53.015][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-12-19 23:26:53.017][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:26:53.018][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:26:53.019][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:26:53.022][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-12-19 23:26:53.049][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-12-19 23:26:53.063][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-12-19 23:26:53.065][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-12-19 23:26:53.066][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-12-19 23:26:53.067][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-12-19 23:26:53.069][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-12-19 23:26:53.070][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-12-19 23:26:53.071][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-12-19 23:26:53.072][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-12-19 23:26:53.074][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-12-19 23:26:53.075][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-12-19 23:26:53.076][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-12-19 23:26:53.077][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-12-19 23:26:53.079][self$setPropertyValue]
biodb.DEBUG[2024-12-19 23:26:53.080][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-12-19 23:26:53.081][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-12-19 23:26:53.081][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-12-19 23:26:53.081][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-12-19 23:26:53.081][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-12-19 23:26:53.081][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-12-19 23:26:53.082][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-12-19 23:26:53.084][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-19 23:26:53.085][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-19 23:26:53.086][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-12-19 23:26:53.087][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-19 23:26:53.088][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-19 23:26:53.089][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-12-19 23:26:53.091][self$setPropertyValue]
biodb.DEBUG[2024-12-19 23:26:53.092][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-12-19 23:26:53.093][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-12-19 23:26:53.095][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-12-19 23:26:53.096][self$setPropertyValue]
biodb.DEBUG[2024-12-19 23:26:53.103][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-12-19 23:26:53.105][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-12-19 23:26:53.106][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-12-19 23:26:53.108][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-12-19 23:26:53.109][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-12-19 23:26:53.110][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-12-19 23:26:53.111][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-12-19 23:26:53.112][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-12-19 23:26:53.114][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-12-19 23:26:53.115][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-12-19 23:26:53.116][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-12-19 23:26:53.117][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-12-19 23:26:53.118][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-12-19 23:26:53.120][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-12-19 23:26:53.121][self$setPropertyValue]
biodb.DEBUG[2024-12-19 23:26:53.122][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-12-19 23:26:53.123][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-12-19 23:26:53.123][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-12-19 23:26:53.123][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-12-19 23:26:53.123][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-12-19 23:26:53.123][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-12-19 23:26:53.124][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-12-19 23:26:53.126][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-19 23:26:53.127][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-19 23:26:53.128][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-12-19 23:26:53.129][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-19 23:26:53.130][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-19 23:26:53.131][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-12-19 23:26:53.132][self$setPropertyValue]
biodb.DEBUG[2024-12-19 23:26:53.134][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-12-19 23:26:53.135][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-12-19 23:26:53.136][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-12-19 23:26:53.138][self$setPropertyValue]
biodb.DEBUG[2024-12-19 23:26:53.140][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-12-19 23:26:53.141][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-12-19 23:26:53.143][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-12-19 23:26:53.144][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-12-19 23:26:53.145][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-12-19 23:26:53.146][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-12-19 23:26:53.147][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-12-19 23:26:53.149][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-12-19 23:26:53.150][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-12-19 23:26:53.151][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-12-19 23:26:53.152][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-12-19 23:26:53.153][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-12-19 23:26:53.155][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-12-19 23:26:53.156][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-12-19 23:26:53.157][self$setPropertyValue]
biodb.DEBUG[2024-12-19 23:26:53.158][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-12-19 23:26:53.159][self$setPropertyValue]
biodb.DEBUG[2024-12-19 23:26:53.161][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-12-19 23:26:53.162][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-19 23:26:53.163][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-19 23:26:53.164][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-12-19 23:26:53.165][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-19 23:26:53.166][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-19 23:26:53.167][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-12-19 23:26:53.169][self$setPropertyValue]
biodb.DEBUG[2024-12-19 23:26:53.170][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-12-19 23:26:53.171][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-12-19 23:26:53.172][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-12-19 23:26:53.173][self$setPropertyValue]
biodb.DEBUG[2024-12-19 23:26:53.175][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-12-19 23:26:53.177][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-12-19 23:26:53.179][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-12-19 23:26:53.180][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-12-19 23:26:53.181][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-12-19 23:26:53.182][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-12-19 23:26:53.183][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-12-19 23:26:53.185][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-12-19 23:26:53.186][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-12-19 23:26:53.187][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-12-19 23:26:53.188][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-12-19 23:26:53.189][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-12-19 23:26:53.191][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-12-19 23:26:53.192][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-12-19 23:26:53.194][self$setPropertyValue]
biodb.DEBUG[2024-12-19 23:26:53.196][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-12-19 23:26:53.198][self$setPropertyValue]
biodb.DEBUG[2024-12-19 23:26:53.200][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-12-19 23:26:53.202][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-19 23:26:53.203][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-19 23:26:53.205][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-12-19 23:26:53.207][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-19 23:26:53.209][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-19 23:26:53.211][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-12-19 23:26:53.212][self$setPropertyValue]
biodb.DEBUG[2024-12-19 23:26:53.213][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-12-19 23:26:53.215][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-12-19 23:26:53.216][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-12-19 23:26:53.217][self$setPropertyValue]
biodb.DEBUG[2024-12-19 23:26:53.221][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-12-19 23:26:53.222][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:26:53.223][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:26:53.224][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:26:53.225][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:26:53.226][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:26:53.227][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:26:53.228][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[2024-12-19 23:26:53.229][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:26:53.230][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:26:53.231][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:26:53.233][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:26:53.234][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:26:53.235][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:26:53.236][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:26:53.237][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:26:53.238][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:26:53.239][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:26:53.240][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:26:53.241][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:26:53.242][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:26:53.243][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:26:53.245][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:26:53.246][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:26:53.247][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:26:53.248][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:26:53.249][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:26:53.250][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:26:53.251][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:26:53.252][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:26:53.253][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:26:53.254][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:26:53.255][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:26:53.257][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:26:53.258][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:26:53.259][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:26:53.260][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:26:53.261][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:26:53.262][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:26:53.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:26:53.264][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:26:53.265][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:26:53.266][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:26:53.267][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:26:53.269][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:26:53.270][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:26:53.271][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:26:53.272][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:26:53.273][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:26:53.274][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:26:53.275][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:26:53.276][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:26:53.277][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:26:53.278][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:26:53.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:26:53.281][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:26:53.282][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:26:53.283][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:26:53.284][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:26:53.285][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:26:53.286][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:26:53.287][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:26:53.288][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:26:53.289][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:26:53.290][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:26:53.291][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:26:53.293][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:26:53.294][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:26:53.295][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:26:53.296][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:26:53.297][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:26:53.298][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:26:53.299][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:26:53.300][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:26:53.301][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:26:53.302][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:26:53.304][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:26:53.305][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:26:53.306][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:26:53.307][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:26:53.308][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:26:53.309][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:26:53.310][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[2024-12-19 23:26:53.311][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:26:53.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:26:53.313][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:26:53.314][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:26:53.315][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[2024-12-19 23:26:53.316][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-12-19 23:26:53.321][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-12-19 23:26:53.322][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-12-19 23:26:53.324][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-12-19 23:26:53.331][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-12-19 23:26:53.333][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-12-19 23:26:53.335][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-12-19 23:26:53.336][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-12-19 23:26:53.338][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-12-19 23:26:53.339][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-12-19 23:26:53.341][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-12-19 23:26:53.342][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-12-19 23:26:53.344][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-12-19 23:26:53.345][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-12-19 23:26:53.347][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-12-19 23:26:53.348][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-12-19 23:26:53.350][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-12-19 23:26:53.352][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-12-19 23:26:53.353][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-12-19 23:26:53.355][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-12-19 23:26:53.356][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-12-19 23:26:53.358][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-12-19 23:26:53.359][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-12-19 23:26:53.361][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-12-19 23:26:53.363][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-12-19 23:26:53.365][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-12-19 23:26:53.367][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-12-19 23:26:53.370][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-12-19 23:26:53.372][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-12-19 23:26:53.375][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-12-19 23:26:53.377][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-12-19 23:26:53.380][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-12-19 23:26:53.382][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-12-19 23:26:53.385][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-12-19 23:26:53.387][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-12-19 23:26:53.389][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-12-19 23:26:53.392][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-12-19 23:26:53.394][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-12-19 23:26:53.397][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-12-19 23:26:53.399][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-12-19 23:26:53.402][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-12-19 23:26:53.404][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-12-19 23:26:53.407][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-12-19 23:26:53.409][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-12-19 23:26:53.412][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-12-19 23:26:53.414][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-12-19 23:26:53.417][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-12-19 23:26:53.419][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-12-19 23:26:53.421][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-12-19 23:26:53.424][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-12-19 23:26:53.426][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-12-19 23:26:53.429][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-12-19 23:26:53.431][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-12-19 23:26:53.434][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-12-19 23:26:53.436][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-12-19 23:26:53.439][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-12-19 23:26:53.441][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-12-19 23:26:53.443][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-12-19 23:26:53.445][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-12-19 23:26:53.447][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-12-19 23:26:53.448][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-12-19 23:26:53.450][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-12-19 23:26:53.451][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-12-19 23:26:53.453][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-12-19 23:26:53.455][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-12-19 23:26:53.456][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-12-19 23:26:53.458][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-12-19 23:26:53.460][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-12-19 23:26:53.461][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-12-19 23:26:53.463][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-12-19 23:26:53.464][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-12-19 23:26:53.466][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-12-19 23:26:53.468][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-12-19 23:26:53.469][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-12-19 23:26:53.471][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-12-19 23:26:53.472][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-12-19 23:26:53.474][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-12-19 23:26:53.475][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-12-19 23:26:53.477][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-12-19 23:26:53.478][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-12-19 23:26:53.480][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-12-19 23:26:53.482][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-12-19 23:26:53.483][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-12-19 23:26:53.518][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-12-19 23:26:53.520][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2024-12-19 23:26:53.524][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-12-19 23:26:53.525][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:26:53.526][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:26:53.527][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:26:53.528][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.DEBUG[2024-12-19 23:26:53.533][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:26:53.534][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:26:53.535][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:26:53.536][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:26:53.537][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:26:53.538][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:26:53.539][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:26:53.540][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:26:53.541][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:26:53.543][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:26:53.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:26:53.545][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:26:53.546][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:26:53.547][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:26:53.548][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:26:53.549][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:26:53.550][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:26:53.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:26:53.552][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:26:53.553][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:26:53.554][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:26:53.555][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:26:53.556][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:26:53.558][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:26:53.559][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:26:53.560][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:26:53.561][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:26:53.562][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:26:53.563][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:26:53.564][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:26:53.565][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:26:53.566][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:26:53.567][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:26:53.568][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:26:53.569][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:26:53.570][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:26:53.571][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:26:53.572][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:26:53.573][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:26:53.575][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:26:53.576][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:26:53.577][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[2024-12-19 23:26:53.578][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:26:53.579][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:26:53.580][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:26:53.581][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:26:53.588][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:26:53.589][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:26:53.590][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[2024-12-19 23:26:53.591][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:26:53.592][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:26:53.593][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:26:53.594][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:26:53.595][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:26:53.596][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:26:53.597][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:26:53.598][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:26:53.600][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:26:53.601][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:26:53.602][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:26:53.603][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:26:53.604][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:26:53.605][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:26:53.606][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:26:53.607][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:26:53.608][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:26:53.609][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:26:53.610][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:26:53.611][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:26:53.612][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:26:53.614][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:26:53.615][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:26:53.616][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:26:53.617][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:26:53.618][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:26:53.619][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:26:53.620][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.DEBUG[2024-12-19 23:26:53.621][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:26:53.622][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:26:53.623][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:26:53.624][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:26:53.626][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:26:53.627][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:26:53.628][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:26:53.629][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:26:53.630][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:26:53.631][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:26:53.632][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:26:53.633][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:26:53.635][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:26:53.636][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:26:53.637][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:26:53.638][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:26:53.639][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:26:53.640][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:26:53.641][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:26:53.642][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:26:53.643][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:26:53.644][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:26:53.645][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:26:53.647][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:26:53.648][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:26:53.649][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:26:53.650][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:26:53.651][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:26:53.652][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:26:53.653][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:26:53.654][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:26:53.655][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:26:53.656][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:26:53.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:26:53.658][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:26:53.659][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:26:53.661][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:26:53.662][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:26:53.663][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:26:53.664][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:26:53.665][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:26:53.666][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:26:53.669][biodb$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.20-bioc/R/library/biodbChebi/definitions.yml".
biodb.DEBUG[2024-12-19 23:26:53.678][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2024-12-19 23:26:53.681][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-12-19 23:26:53.682][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-12-19 23:26:53.683][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-12-19 23:26:53.684][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-12-19 23:26:53.685][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-12-19 23:26:53.687][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-12-19 23:26:53.688][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-12-19 23:26:53.689][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2024-12-19 23:26:53.690][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-12-19 23:26:53.691][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-12-19 23:26:53.693][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-12-19 23:26:53.694][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2024-12-19 23:26:53.695][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-12-19 23:26:53.696][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2024-12-19 23:26:53.696][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2024-12-19 23:26:53.696][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2024-12-19 23:26:53.696][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2024-12-19 23:26:53.696][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2024-12-19 23:26:53.696][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2024-12-19 23:26:53.696][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2024-12-19 23:26:53.696][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2024-12-19 23:26:53.696][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2024-12-19 23:26:53.696][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2024-12-19 23:26:53.696][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2024-12-19 23:26:53.698][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-12-19 23:26:53.699][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-12-19 23:26:53.699][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-12-19 23:26:53.699][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-12-19 23:26:53.700][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-12-19 23:26:53.701][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-19 23:26:53.702][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-19 23:26:53.704][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-12-19 23:26:53.705][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-19 23:26:53.706][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-19 23:26:53.707][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-12-19 23:26:53.708][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-12-19 23:26:53.708][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2024-12-19 23:26:53.709][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-12-19 23:26:53.710][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-12-19 23:26:53.712][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-12-19 23:26:53.713][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2024-12-19 23:26:53.713][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2024-12-19 23:26:53.718][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-12-19 23:26:53.720][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-12-19 23:26:53.722][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2024-12-19 23:26:53.724][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-12-19 23:26:53.725][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-12-19 23:26:53.727][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-12-19 23:26:53.749][super$initialize] Initialize connector chebi.
biodb.DEBUG[2024-12-19 23:26:53.751][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2024-12-19 23:26:53.754][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2024-12-19 23:26:53.758][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2024-12-19 23:26:53.762][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-12-19 23:26:53.764][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-12-19 23:26:53.765][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2024-12-19 23:26:53.767][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2024-12-19 23:26:53.777][biodb::testThat]
biodb.INFO [2024-12-19 23:26:53.778][biodb::testThat] Running test function test.entry.fields (" Entry fields have a correct value ").
biodb.INFO [2024-12-19 23:26:53.779][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-12-19 23:26:53.780][biodb::testThat]
biodb.TRACE[2024-12-19 23:26:53.800][loadFileContents] Loaded 1 files from cache: [1]: "F:/biocbuild/bbs-3.20-bioc/R/library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2024-12-19 23:26:53.802][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-12-19 23:26:53.806][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-12-19 23:26:53.824][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:26:53.826][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:26:53.828][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:26:53.855][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:26:53.856][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:26:53.858][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:26:53.859][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.TRACE[2024-12-19 23:26:53.867][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:26:53.869][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:26:53.870][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:53.871][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:53.873][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:26:53.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:26:53.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:53.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:53.889][ef$get] Asked field names are: charge.
biodb.TRACE[2024-12-19 23:26:53.891][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-19 23:26:53.892][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:53.893][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:53.917][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-12-19 23:26:53.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-19 23:26:53.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:53.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:53.922][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-19 23:26:53.924][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-19 23:26:53.925][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:53.926][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:53.928][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-19 23:26:53.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-19 23:26:53.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:53.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:53.933][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-19 23:26:53.934][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-19 23:26:53.935][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:53.936][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:53.938][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-19 23:26:53.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-19 23:26:53.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:53.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:53.943][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-19 23:26:53.944][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-19 23:26:53.945][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:53.947][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:53.948][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-19 23:26:53.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-19 23:26:53.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:53.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:53.953][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:26:53.954][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:26:53.956][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:53.957][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:53.958][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:26:53.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:26:53.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:53.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:53.963][ef$get] Asked field names are: mass.
biodb.TRACE[2024-12-19 23:26:53.965][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:26:53.966][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:53.967][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:53.968][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-12-19 23:26:53.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:26:53.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:53.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:53.973][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:26:53.975][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:26:53.976][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:53.977][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:53.979][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:26:53.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:26:53.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:53.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:53.984][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:26:53.985][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:26:53.986][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:53.987][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:53.989][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:26:53.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:26:53.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:53.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:53.995][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-19 23:26:53.997][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-19 23:26:53.999][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.001][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.003][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-19 23:26:54.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-19 23:26:54.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.058][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-19 23:26:54.060][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-19 23:26:54.062][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.064][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.066][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-19 23:26:54.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-19 23:26:54.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.074][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:26:54.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:26:54.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.082][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:26:54.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:26:54.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.089][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:26:54.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:26:54.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.097][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:26:54.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:26:54.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.105][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:26:54.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:26:54.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.113][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:26:54.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:26:54.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.121][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:26:54.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:26:54.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.155][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:26:54.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:26:54.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.160][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:26:54.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:26:54.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.165][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:26:54.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:26:54.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:26:54.170][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2024-12-19 23:26:54.177][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-19 23:26:54.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-19 23:26:54.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.183][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-19 23:26:54.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-19 23:26:54.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.208][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-19 23:26:54.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-19 23:26:54.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.213][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-19 23:26:54.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-19 23:26:54.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.218][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:26:54.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:26:54.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.229][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:26:54.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:26:54.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.236][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-12-19 23:26:54.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-12-19 23:26:54.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.241][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-12-19 23:26:54.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-12-19 23:26:54.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.246][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-12-19 23:26:54.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-12-19 23:26:54.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.251][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-12-19 23:26:54.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-12-19 23:26:54.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.349][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:26:54.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:26:54.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.373][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:26:54.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:26:54.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.384][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:26:54.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:26:54.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.389][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:26:54.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:26:54.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.394][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:26:54.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:26:54.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.401][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:26:54.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:26:54.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.406][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:26:54.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:26:54.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.410][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:26:54.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:26:54.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.415][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:26:54.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:26:54.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.420][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:26:54.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:26:54.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.425][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:26:54.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:26:54.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.443][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:26:54.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:26:54.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.448][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:26:54.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:26:54.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.453][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:26:54.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:26:54.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.458][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:26:54.459][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:26:54.461][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.462][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.463][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:26:54.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:26:54.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.487][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:26:54.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:26:54.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.493][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:26:54.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:26:54.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.497][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:26:54.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:26:54.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.508][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:26:54.510][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:26:54.511][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.512][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.513][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:26:54.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:26:54.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.534][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:26:54.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:26:54.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.539][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:26:54.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:26:54.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.544][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:26:54.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:26:54.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.549][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:26:54.550][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:26:54.552][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.553][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.554][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:26:54.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:26:54.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.573][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-19 23:26:54.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-19 23:26:54.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.578][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-19 23:26:54.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-19 23:26:54.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.583][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-19 23:26:54.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-19 23:26:54.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.588][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-19 23:26:54.589][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-19 23:26:54.590][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.591][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.592][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-19 23:26:54.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-19 23:26:54.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.610][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:26:54.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:26:54.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.616][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:26:54.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:26:54.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.620][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:26:54.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:26:54.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.625][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:26:54.626][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:26:54.628][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.629][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.630][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:26:54.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:26:54.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.644][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:26:54.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:26:54.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.649][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:26:54.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:26:54.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.654][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:26:54.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:26:54.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.659][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:26:54.660][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:26:54.661][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.663][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.665][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:26:54.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:26:54.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.686][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-12-19 23:26:54.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-19 23:26:54.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.691][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-12-19 23:26:54.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-19 23:26:54.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.696][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-12-19 23:26:54.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-19 23:26:54.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.701][ef$get] Asked field names are: charge.
biodb.TRACE[2024-12-19 23:26:54.703][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-19 23:26:54.708][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.710][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.711][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-12-19 23:26:54.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-19 23:26:54.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.733][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-12-19 23:26:54.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-19 23:26:54.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.740][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-12-19 23:26:54.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-19 23:26:54.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.745][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-12-19 23:26:54.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-19 23:26:54.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.750][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-12-19 23:26:54.751][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-19 23:26:54.752][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.753][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.755][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-12-19 23:26:54.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-19 23:26:54.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.777][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:26:54.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:26:54.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.785][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:26:54.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:26:54.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.793][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:26:54.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:26:54.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.801][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:26:54.803][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:26:54.804][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.805][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.806][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:26:54.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:26:54.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.820][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-19 23:26:54.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-19 23:26:54.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.826][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-19 23:26:54.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-19 23:26:54.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.830][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-19 23:26:54.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-19 23:26:54.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.835][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-19 23:26:54.836][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-19 23:26:54.838][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.839][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.840][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-19 23:26:54.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-19 23:26:54.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.860][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-19 23:26:54.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-19 23:26:54.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.865][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-19 23:26:54.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-19 23:26:54.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.870][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-19 23:26:54.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-19 23:26:54.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.875][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-19 23:26:54.876][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-19 23:26:54.877][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.878][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.879][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-19 23:26:54.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-19 23:26:54.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.897][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-19 23:26:54.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-19 23:26:54.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.902][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-19 23:26:54.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-19 23:26:54.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.907][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-19 23:26:54.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-19 23:26:54.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.912][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-19 23:26:54.913][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-19 23:26:54.914][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.915][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.917][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-19 23:26:54.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-19 23:26:54.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.937][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:26:54.939][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:26:54.940][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.941][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.952][ef$get] Asked field names are: charge.
biodb.TRACE[2024-12-19 23:26:54.953][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-19 23:26:54.955][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.956][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.968][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-19 23:26:54.969][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-19 23:26:54.970][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.971][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.982][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-19 23:26:54.983][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-19 23:26:54.985][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:54.986][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:54.997][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-19 23:26:54.998][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-19 23:26:54.999][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:55.000][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:55.008][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:26:55.010][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:26:55.011][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:55.012][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:55.019][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:26:55.020][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:26:55.022][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:55.023][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:55.030][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:26:55.031][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:26:55.032][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:55.033][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:55.040][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-12-19 23:26:55.041][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-19 23:26:55.043][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:55.044][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:55.050][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:26:55.051][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:26:55.053][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:55.054][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:55.060][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-19 23:26:55.061][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-19 23:26:55.063][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:55.064][ef$get] fields variable is a list.
biodb.INFO [2024-12-19 23:26:55.088][biodb::testThat]
biodb.INFO [2024-12-19 23:26:55.089][biodb::testThat] Running test function test.rt.unit (" RT unit is defined when there is an RT value. ").
biodb.INFO [2024-12-19 23:26:55.091][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-12-19 23:26:55.092][biodb::testThat]
biodb.DEBUG[2024-12-19 23:26:55.105][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2024-12-19 23:26:55.111][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-12-19 23:26:55.117][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15440".
biodb.TRACE[2024-12-19 23:26:55.119][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-19 23:26:55.121][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml".
biodb.DEBUG[2024-12-19 23:26:55.123][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-12-19 23:26:55.150][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-12-19 23:26:55.152][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-12-19 23:26:55.153][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:26:55.154][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:26:55.156][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:26:55.163][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:26:55.164][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:26:55.165][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:26:55.166][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:26:55.169][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:26:55.170][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:26:55.171][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:55.172][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:55.174][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:26:55.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:26:55.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:55.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:55.194][ef$get] Asked field names are: charge.
biodb.TRACE[2024-12-19 23:26:55.195][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-19 23:26:55.197][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:55.198][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:55.199][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-12-19 23:26:55.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-19 23:26:55.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:55.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:55.204][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-19 23:26:55.206][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-19 23:26:55.207][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:55.208][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:55.209][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-19 23:26:55.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-19 23:26:55.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:55.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:55.214][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-19 23:26:55.216][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-19 23:26:55.217][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:55.218][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:55.219][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-19 23:26:55.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-19 23:26:55.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:55.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:55.224][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-19 23:26:55.225][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-19 23:26:55.227][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:55.228][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:55.229][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-19 23:26:55.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-19 23:26:55.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:55.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:55.234][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:26:55.235][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:26:55.236][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:55.237][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:55.239][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:26:55.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:26:55.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:55.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:55.244][ef$get] Asked field names are: mass.
biodb.TRACE[2024-12-19 23:26:55.245][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:26:55.246][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:55.247][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:55.249][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-12-19 23:26:55.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:26:55.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:55.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:55.254][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:26:55.255][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:26:55.256][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:55.257][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:55.259][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:26:55.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:26:55.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:55.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:55.264][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:26:55.265][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:26:55.266][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:55.267][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:55.269][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:26:55.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:26:55.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:55.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:55.274][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-19 23:26:55.275][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-19 23:26:55.276][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:55.278][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:55.279][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-19 23:26:55.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-19 23:26:55.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:55.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:55.284][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-19 23:26:55.285][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-19 23:26:55.286][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:55.292][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:55.294][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-19 23:26:55.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-19 23:26:55.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:55.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:55.299][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:26:55.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:26:55.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:55.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:55.304][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:26:55.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:26:55.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:55.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:55.308][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:26:55.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:26:55.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:55.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:55.313][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:26:55.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:26:55.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:55.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:55.318][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:26:55.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:26:55.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:55.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:55.323][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:26:55.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:26:55.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:55.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:55.327][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:26:55.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:26:55.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:55.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:55.332][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:26:55.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:26:55.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:55.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:55.337][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:26:55.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:26:55.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:55.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:55.342][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:26:55.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:26:55.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:55.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:26:55.346][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2024-12-19 23:26:55.348][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2024-12-19 23:26:55.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2024-12-19 23:26:55.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:55.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:55.355][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2024-12-19 23:26:55.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2024-12-19 23:26:55.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:55.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:55.363][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2024-12-19 23:26:55.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2024-12-19 23:26:55.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:55.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-12-19 23:26:55.385][biodb::testThat]
biodb.INFO [2024-12-19 23:26:55.386][biodb::testThat] Running test function test.searchForEntries (" We can search for an entry by searchable field ").
biodb.INFO [2024-12-19 23:26:55.387][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-12-19 23:26:55.388][biodb::testThat]
biodb.TRACE[2024-12-19 23:26:55.392][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:26:55.393][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:26:55.394][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:55.396][ef$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:26:55.398][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2024-12-19 23:26:55.436][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:26:55.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:26:55.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:55.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:55.442][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:26:55.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:26:55.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:55.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:55.447][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:26:55.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:26:55.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:55.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:26:55.455][function(conn, opt)] With value "squalene".
biodb.DEBUG[2024-12-19 23:26:55.459][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2024-12-19 23:26:55.483][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-12-19 23:26:55.498][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2024-12-19 23:26:55.500][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-19 23:26:55.502][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2024-12-19 23:26:55.524][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-12-19 23:26:55.528][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-12-19 23:26:55.529][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-12-19 23:26:55.531][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL%20NAMES&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-12-19 23:26:56.231][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL%20NAMES&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-12-19 23:26:56.711][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-12-19 23:26:56.714][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content"
biodb.TRACE[2024-12-19 23:26:56.729][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.request"
biodb.DEBUG[2024-12-19 23:26:56.733][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2024-12-19 23:26:56.759][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:26:56.761][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:26:56.763][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:56.764][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:56.765][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:26:56.766][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:26:56.767][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:56.768][ef$get] fields variable is a list.
biodb.INFO [2024-12-19 23:26:56.782][biodb::testThat]
biodb.INFO [2024-12-19 23:26:56.784][biodb::testThat] Running test function test.searchByName (" We can search for an entry by name. ").
biodb.INFO [2024-12-19 23:26:56.785][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-12-19 23:26:56.786][biodb::testThat]
biodb.TRACE[2024-12-19 23:26:56.832][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:26:56.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:26:56.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:56.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:56.838][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:26:56.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:26:56.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:56.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:56.843][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:26:56.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:26:56.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:56.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:26:56.904][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-12-19 23:26:56.908][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-12-19 23:26:56.912][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-12-19 23:26:56.914][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-19 23:26:56.918][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.INFO [2024-12-19 23:26:56.971][biodb::testThat]
biodb.INFO [2024-12-19 23:26:56.973][biodb::testThat] Running test function testEntryLoading (" We can load an entry from the database. ").
biodb.INFO [2024-12-19 23:26:56.975][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-12-19 23:26:56.976][biodb::testThat]
biodb.TRACE[2024-12-19 23:26:57.118][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-19 23:26:57.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-19 23:26:57.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:57.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:57.123][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-19 23:26:57.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-19 23:26:57.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:57.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:57.129][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-19 23:26:57.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-19 23:26:57.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:57.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:57.134][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-19 23:26:57.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-19 23:26:57.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:57.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:57.141][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:26:57.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:26:57.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:57.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:57.146][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:26:57.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:26:57.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:57.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:57.152][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-12-19 23:26:57.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-12-19 23:26:57.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:57.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:57.158][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-12-19 23:26:57.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-12-19 23:26:57.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:57.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:57.163][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-12-19 23:26:57.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-12-19 23:26:57.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:57.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:57.168][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-12-19 23:26:57.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-12-19 23:26:57.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:57.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:57.191][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-19 23:26:57.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-19 23:26:57.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:57.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:57.202][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-19 23:26:57.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-19 23:26:57.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:57.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:57.207][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-19 23:26:57.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-19 23:26:57.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:57.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:57.212][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-19 23:26:57.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-19 23:26:57.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:57.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:57.217][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:26:57.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:26:57.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:57.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:57.222][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:26:57.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:26:57.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:57.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:57.227][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-12-19 23:26:57.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-12-19 23:26:57.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:57.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:57.232][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-12-19 23:26:57.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-12-19 23:26:57.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:57.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:57.237][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-12-19 23:26:57.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-12-19 23:26:57.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:57.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:57.242][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-12-19 23:26:57.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-12-19 23:26:57.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:57.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-12-19 23:26:57.259][biodb::testThat]
biodb.INFO [2024-12-19 23:26:57.261][biodb::testThat] Running test function test.entry.page.url (" We can get a URL pointing to the entry page. ").
biodb.INFO [2024-12-19 23:26:57.262][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-12-19 23:26:57.263][biodb::testThat]
biodb.INFO [2024-12-19 23:26:57.278][biodb::testThat]
biodb.INFO [2024-12-19 23:26:57.280][biodb::testThat] Running test function test.entry.image.url (" We can get a URL pointing to the entry image. ").
biodb.INFO [2024-12-19 23:26:57.281][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-12-19 23:26:57.282][biodb::testThat]
biodb.INFO [2024-12-19 23:26:57.299][biodb::testThat]
biodb.INFO [2024-12-19 23:26:57.300][biodb::testThat] Running test function test.entry.page.url.download (" The entry page URL can be downloaded. ").
biodb.INFO [2024-12-19 23:26:57.302][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-12-19 23:26:57.303][biodb::testThat]
biodb.DEBUG[2024-12-19 23:26:57.308][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
biodb.DEBUG[2024-12-19 23:26:57.964][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440.
biodb.INFO [2024-12-19 23:26:58.851][biodb::testThat]
biodb.INFO [2024-12-19 23:26:58.853][biodb::testThat] Running test function test.entry.image.url.download (" The entry image URL can be downloaded. ").
biodb.INFO [2024-12-19 23:26:58.854][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-12-19 23:26:58.855][biodb::testThat]
biodb.DEBUG[2024-12-19 23:26:59.256][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/displayImage.do?defaultImage=true&imageIndex=0&chebiId=15440&dimensions=400.
biodb.TRACE[2024-12-19 23:26:59.643][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:26:59.645][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:26:59.646][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:59.647][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:59.648][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:26:59.650][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:26:59.651][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:59.652][ef$get] fields variable is a list.
biodb.INFO [2024-12-19 23:26:59.655][biodb::testThat]
biodb.INFO [2024-12-19 23:26:59.665][biodb::testThat] Running test function test.searchCompound (" We can search for a compound ").
biodb.INFO [2024-12-19 23:26:59.666][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-12-19 23:26:59.668][biodb::testThat]
biodb.TRACE[2024-12-19 23:26:59.696][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:26:59.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:26:59.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:59.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:59.701][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:26:59.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:26:59.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:59.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:26:59.707][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:26:59.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:26:59.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:59.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:26:59.855][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-12-19 23:26:59.866][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-12-19 23:26:59.868][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-12-19 23:26:59.870][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-19 23:26:59.872][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-12-19 23:26:59.938][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-12-19 23:26:59.942][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-12-19 23:26:59.944][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-12-19 23:26:59.946][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-19 23:26:59.949][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.TRACE[2024-12-19 23:26:59.995][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-12-19 23:26:59.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-12-19 23:26:59.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:26:59.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:00.011][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:00.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:00.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:00.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:00.017][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:00.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:00.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:00.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:00.022][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:00.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:00.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:00.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:00.027][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:00.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:00.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:00.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:00.031][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:00.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:00.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:00.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:00.043][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-12-19 23:27:00.058][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-12-19 23:27:00.059][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-12-19 23:27:00.074][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-12-19 23:27:00.392][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-12-19 23:27:00.703][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-12-19 23:27:00.707][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content"
biodb.TRACE[2024-12-19 23:27:00.725][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.request"
biodb.DEBUG[2024-12-19 23:27:00.728][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:00.730][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:00.731][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:00.748][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:00.749][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:00.750][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:00.751][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:27:00.753][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2024-12-19 23:27:00.805][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-12-19 23:27:00.809][cch$loadFileContent] Trying to load 1 files from cache: [1]: "192288".
biodb.TRACE[2024-12-19 23:27:00.812][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-12-19 23:27:00.815][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-12-19 23:27:00.817][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-12-19 23:27:00.819][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-12-19 23:27:00.822][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-12-19 23:27:00.824][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-12-19 23:27:00.828][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:00.830][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:00.831][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:00.841][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:00.850][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:00.852][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:00.853][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:27:00.855][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288".
biodb.DEBUG[2024-12-19 23:27:00.860][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-12-19 23:27:00.862][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-12-19 23:27:00.865][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288".
biodb.TRACE[2024-12-19 23:27:01.250][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288).
biodb.DEBUG[2024-12-19 23:27:02.032][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-12-19 23:27:02.036][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7e76f7a384ab933ed01801c92c3eec77.content"
biodb.TRACE[2024-12-19 23:27:02.041][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7e76f7a384ab933ed01801c92c3eec77.request"
biodb.TRACE[2024-12-19 23:27:02.046][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml"
biodb.DEBUG[2024-12-19 23:27:02.055][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-12-19 23:27:02.057][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-12-19 23:27:02.059][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-12-19 23:27:02.062][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:02.063][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:02.065][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:02.424][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:02.426][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:02.428][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:02.429][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:02.433][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:02.434][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:02.436][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:02.437][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:02.439][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:02.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:02.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:02.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:02.559][ef$get] Asked field names are: charge.
biodb.TRACE[2024-12-19 23:27:02.560][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-19 23:27:02.562][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:02.563][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:02.565][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-12-19 23:27:02.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-19 23:27:02.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:02.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:02.572][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-19 23:27:02.574][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-19 23:27:02.575][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:02.577][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:02.579][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-19 23:27:02.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-19 23:27:02.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:02.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:02.585][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-19 23:27:02.587][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-19 23:27:02.589][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:02.590][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:02.592][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-19 23:27:02.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-19 23:27:02.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:02.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:02.598][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-19 23:27:02.600][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-19 23:27:02.602][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:02.603][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:02.605][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-19 23:27:02.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-19 23:27:02.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:02.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:02.611][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:27:02.613][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:27:02.614][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:02.616][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:02.618][ef$get] Asked field names are: mass.
biodb.TRACE[2024-12-19 23:27:02.620][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:02.621][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:02.623][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:02.624][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-12-19 23:27:02.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:02.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:02.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:02.631][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:02.633][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:02.634][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:02.636][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:02.667][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:02.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:02.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:02.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:02.675][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:27:02.677][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:27:02.834][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:02.836][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:02.838][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:27:02.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:27:02.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:02.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:02.845][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-19 23:27:02.846][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-19 23:27:02.848][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:02.849][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:02.851][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-19 23:27:02.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-19 23:27:02.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:02.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:02.858][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-19 23:27:02.859][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-19 23:27:02.861][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:02.862][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:02.864][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-19 23:27:02.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-19 23:27:02.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:02.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:02.871][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:02.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:02.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:02.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:02.877][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:02.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:02.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:02.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:02.883][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:02.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:02.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:02.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:02.889][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:02.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:02.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:02.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:02.895][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:02.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:02.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:02.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:02.902][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:02.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:02.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:02.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:02.908][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:02.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:02.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:02.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:02.914][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:02.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:02.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:02.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:02.920][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:02.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:02.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:02.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:02.926][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:02.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:02.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:02.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:02.933][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2024-12-19 23:27:02.944][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:02.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:02.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:02.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:02.951][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:02.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:02.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:02.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:02.957][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:02.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:02.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:02.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:02.972][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-12-19 23:27:02.981][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-12-19 23:27:02.984][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-12-19 23:27:02.987][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-12-19 23:27:03.324][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-12-19 23:27:03.644][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-12-19 23:27:03.649][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content"
biodb.TRACE[2024-12-19 23:27:03.657][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.request"
biodb.DEBUG[2024-12-19 23:27:03.673][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:03.675][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:03.676][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:03.687][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:03.688][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:03.690][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:03.691][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:03.692][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:03.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:03.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:03.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:03.698][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:03.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:03.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:03.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:03.703][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:03.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:03.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:03.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:03.708][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:03.709][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:03.710][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:03.726][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:03.728][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:03.730][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:03.731][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:27:03.732][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2024-12-19 23:27:03.734][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-12-19 23:27:03.736][cch$loadFileContent] Trying to load 1 files from cache: [1]: "209892".
biodb.TRACE[2024-12-19 23:27:03.737][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-12-19 23:27:03.739][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-12-19 23:27:03.740][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-12-19 23:27:03.741][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-12-19 23:27:03.743][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-12-19 23:27:03.745][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-12-19 23:27:03.769][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:03.770][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:03.772][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:03.783][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:03.785][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:03.787][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:03.789][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:27:03.791][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892".
biodb.DEBUG[2024-12-19 23:27:03.795][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-12-19 23:27:03.797][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-12-19 23:27:03.799][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892".
biodb.TRACE[2024-12-19 23:27:04.125][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892).
biodb.DEBUG[2024-12-19 23:27:04.437][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-12-19 23:27:04.439][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7a3362365076d47cdf0955cccdd37bcf.content"
biodb.TRACE[2024-12-19 23:27:04.444][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7a3362365076d47cdf0955cccdd37bcf.request"
biodb.TRACE[2024-12-19 23:27:04.449][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml"
biodb.DEBUG[2024-12-19 23:27:04.451][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-12-19 23:27:04.453][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-12-19 23:27:04.454][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-12-19 23:27:04.456][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:04.457][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:04.458][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:04.469][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:04.470][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:04.471][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:04.472][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:04.475][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:04.476][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:04.477][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:04.478][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:04.480][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:04.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:04.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:04.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:04.485][ef$get] Asked field names are: charge.
biodb.TRACE[2024-12-19 23:27:04.486][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-19 23:27:04.488][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:04.489][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:04.490][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-12-19 23:27:04.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-19 23:27:04.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:04.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:04.495][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-19 23:27:04.497][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-19 23:27:04.498][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:04.499][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:04.501][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-19 23:27:04.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-19 23:27:04.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:04.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:04.506][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-19 23:27:04.507][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-19 23:27:04.508][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:04.509][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:04.511][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-19 23:27:04.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-19 23:27:04.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:04.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:04.516][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-19 23:27:04.517][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-19 23:27:04.518][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:04.519][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:04.521][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-19 23:27:04.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-19 23:27:04.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:04.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:04.526][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:27:04.528][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:27:04.529][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:04.538][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:04.540][ef$get] Asked field names are: mass.
biodb.TRACE[2024-12-19 23:27:04.541][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:04.543][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:04.544][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:04.545][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-12-19 23:27:04.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:04.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:04.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:04.550][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:04.552][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:04.553][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:04.554][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:04.556][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:04.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:04.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:04.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:04.561][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:27:04.563][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:27:04.564][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:04.565][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:04.567][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:27:04.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:27:04.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:04.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:04.572][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-19 23:27:04.573][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-19 23:27:04.574][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:04.575][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:04.577][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-19 23:27:04.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-19 23:27:04.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:04.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:04.582][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-19 23:27:04.583][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-19 23:27:04.584][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:04.586][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:04.587][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-19 23:27:04.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-19 23:27:04.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:04.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:04.592][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:04.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:04.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:04.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:04.597][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:04.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:04.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:04.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:04.602][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:04.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:04.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:04.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:04.607][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:04.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:04.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:04.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:04.612][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:04.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:04.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:04.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:04.617][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:04.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:04.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:04.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:04.623][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:04.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:04.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:04.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:04.628][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:04.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:04.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:04.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:04.634][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:04.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:04.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:04.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:04.640][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:04.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:04.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:04.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:04.645][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2024-12-19 23:27:04.646][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:04.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:04.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:04.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:04.651][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:04.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:04.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:04.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:04.682][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:04.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:04.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:04.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:04.734][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-12-19 23:27:04.738][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-12-19 23:27:04.740][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-12-19 23:27:04.742][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-19 23:27:04.744][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-12-19 23:27:04.747][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:04.748][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:04.750][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:04.764][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:04.765][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:04.766][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:04.768][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:04.769][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:04.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:04.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:04.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:04.774][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:04.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:04.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:04.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:04.780][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:04.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:04.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:04.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:04.785][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:04.786][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:04.787][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:04.794][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:04.796][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:04.797][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:04.798][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:27:04.799][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2024-12-19 23:27:04.800][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-12-19 23:27:04.802][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26747".
biodb.TRACE[2024-12-19 23:27:04.804][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-12-19 23:27:04.805][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-12-19 23:27:04.807][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-12-19 23:27:04.808][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-12-19 23:27:04.809][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-12-19 23:27:04.811][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-12-19 23:27:04.814][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:04.815][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:04.816][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:04.828][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:04.829][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:04.830][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:04.831][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:27:04.833][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747".
biodb.DEBUG[2024-12-19 23:27:04.838][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-12-19 23:27:04.840][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-12-19 23:27:04.843][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747".
biodb.TRACE[2024-12-19 23:27:05.171][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747).
biodb.DEBUG[2024-12-19 23:27:05.483][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-12-19 23:27:05.487][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/462a35453014388bd90df1c9e4ade520.content"
biodb.TRACE[2024-12-19 23:27:05.492][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/462a35453014388bd90df1c9e4ade520.request"
biodb.TRACE[2024-12-19 23:27:05.496][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml"
biodb.DEBUG[2024-12-19 23:27:05.498][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-12-19 23:27:05.500][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-12-19 23:27:05.501][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-12-19 23:27:05.503][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:05.504][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:05.506][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:05.519][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:05.521][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:05.523][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:05.525][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:05.528][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:05.529][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:05.531][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:05.532][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:05.533][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:05.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:05.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:05.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:05.538][ef$get] Asked field names are: charge.
biodb.TRACE[2024-12-19 23:27:05.540][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-19 23:27:05.541][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:05.542][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:05.544][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-19 23:27:05.546][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-19 23:27:05.548][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:05.549][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:05.551][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-19 23:27:05.553][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-19 23:27:05.554][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:05.556][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:05.558][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-19 23:27:05.559][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-19 23:27:05.560][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:05.561][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:05.563][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:27:05.565][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:27:05.566][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:05.568][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:05.569][ef$get] Asked field names are: mass.
biodb.TRACE[2024-12-19 23:27:05.570][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:05.572][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:05.573][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:05.575][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:05.576][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:05.577][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:05.579][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:05.580][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:27:05.582][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:27:05.584][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:05.585][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:05.588][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:27:05.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:27:05.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:05.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:05.596][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-19 23:27:05.598][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-19 23:27:05.600][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:05.601][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:05.604][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-19 23:27:05.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-19 23:27:05.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:05.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:05.612][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-19 23:27:05.614][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-19 23:27:05.616][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:05.617][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:05.620][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:05.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:05.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:05.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:05.628][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:05.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:05.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:05.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:05.635][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:05.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:05.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:05.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:05.647][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:05.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:05.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:05.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:05.654][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:05.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:05.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:05.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:05.662][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:05.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:05.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:05.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:05.670][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:05.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:05.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:05.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:05.679][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:05.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:05.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:05.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:05.685][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:05.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:05.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:05.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:05.690][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:05.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:05.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:05.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:05.695][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2024-12-19 23:27:05.696][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:05.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:05.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:05.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:05.701][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:05.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:05.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:05.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:05.706][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:05.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:05.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:05.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:05.711][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:05.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:05.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:05.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:05.716][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:05.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:05.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:05.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:05.721][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:05.722][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:05.723][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:05.730][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:05.732][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:05.733][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:05.734][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:27:05.735][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2024-12-19 23:27:05.736][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-12-19 23:27:05.738][cch$loadFileContent] Trying to load 1 files from cache: [1]: "59285".
biodb.TRACE[2024-12-19 23:27:05.740][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-12-19 23:27:05.741][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-12-19 23:27:05.743][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-12-19 23:27:05.744][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-12-19 23:27:05.745][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-12-19 23:27:05.747][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-12-19 23:27:05.750][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:05.751][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:05.752][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:05.764][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:05.766][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:05.768][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:05.770][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:27:05.773][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285".
biodb.DEBUG[2024-12-19 23:27:05.778][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-12-19 23:27:05.779][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-12-19 23:27:05.781][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285".
biodb.TRACE[2024-12-19 23:27:06.117][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285).
biodb.DEBUG[2024-12-19 23:27:06.443][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-12-19 23:27:06.447][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a390fa120be311b7c431851d8d66d5ac.content"
biodb.TRACE[2024-12-19 23:27:06.461][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a390fa120be311b7c431851d8d66d5ac.request"
biodb.TRACE[2024-12-19 23:27:06.466][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml"
biodb.DEBUG[2024-12-19 23:27:06.469][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-12-19 23:27:06.470][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-12-19 23:27:06.472][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-12-19 23:27:06.475][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:06.476][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:06.477][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:06.489][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:06.491][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:06.492][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:06.494][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:06.497][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:06.499][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:06.500][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:06.501][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:06.503][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:06.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:06.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:06.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:06.508][ef$get] Asked field names are: charge.
biodb.TRACE[2024-12-19 23:27:06.510][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-19 23:27:06.511][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:06.513][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:06.515][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-19 23:27:06.516][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-19 23:27:06.518][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:06.519][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:06.520][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-19 23:27:06.522][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-19 23:27:06.523][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:06.524][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:06.526][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-19 23:27:06.527][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-19 23:27:06.529][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:06.530][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:06.531][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:27:06.533][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:27:06.534][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:06.535][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:06.537][ef$get] Asked field names are: mass.
biodb.TRACE[2024-12-19 23:27:06.538][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:06.540][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:06.541][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:06.542][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:06.544][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:06.545][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:06.546][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:06.548][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:27:06.549][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:27:06.550][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:06.551][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:06.553][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:27:06.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:27:06.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:06.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:06.559][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-19 23:27:06.560][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-19 23:27:06.561][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:06.562][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:06.564][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-19 23:27:06.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-19 23:27:06.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:06.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:06.569][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-19 23:27:06.570][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-19 23:27:06.571][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:06.572][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:06.574][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:06.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:06.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:06.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:06.579][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:06.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:06.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:06.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:06.584][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:06.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:06.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:06.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:06.589][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:06.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:06.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:06.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:06.602][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:06.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:06.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:06.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:06.607][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:06.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:06.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:06.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:06.612][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:06.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:06.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:06.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:06.617][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:06.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:06.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:06.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:06.622][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:06.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:06.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:06.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:06.627][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:06.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:06.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:06.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:06.632][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2024-12-19 23:27:06.633][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:06.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:06.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:06.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:06.638][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:06.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:06.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:06.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:06.644][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:06.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:06.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:06.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:06.649][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:06.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:06.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:06.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:06.654][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:06.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:06.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:06.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:06.659][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:06.660][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:06.661][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:06.670][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:06.672][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:06.674][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:06.676][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:27:06.679][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2024-12-19 23:27:06.681][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-12-19 23:27:06.685][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75174".
biodb.TRACE[2024-12-19 23:27:06.688][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-12-19 23:27:06.690][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-12-19 23:27:06.693][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-12-19 23:27:06.695][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-12-19 23:27:06.698][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-12-19 23:27:06.700][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-12-19 23:27:06.705][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:06.707][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:06.708][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:06.724][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:06.727][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:06.728][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:06.729][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:27:06.731][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75174".
biodb.DEBUG[2024-12-19 23:27:06.735][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-12-19 23:27:06.737][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-12-19 23:27:06.739][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75174".
biodb.TRACE[2024-12-19 23:27:07.057][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75174).
biodb.DEBUG[2024-12-19 23:27:07.365][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-12-19 23:27:07.370][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/379ec57940c7734782bc4c07c7e15a9b.content"
biodb.TRACE[2024-12-19 23:27:07.389][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/379ec57940c7734782bc4c07c7e15a9b.request"
biodb.TRACE[2024-12-19 23:27:07.396][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml"
biodb.DEBUG[2024-12-19 23:27:07.399][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-12-19 23:27:07.401][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-12-19 23:27:07.403][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-12-19 23:27:07.405][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:07.407][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:07.408][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:07.416][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:07.418][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:07.419][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:07.420][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:07.423][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:07.425][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:07.426][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:07.427][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:07.429][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:07.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:07.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:07.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:07.436][ef$get] Asked field names are: charge.
biodb.TRACE[2024-12-19 23:27:07.438][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-19 23:27:07.439][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:07.441][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:07.443][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-19 23:27:07.445][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-19 23:27:07.447][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:07.448][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:07.450][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-19 23:27:07.452][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-19 23:27:07.453][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:07.455][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:07.457][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-19 23:27:07.459][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-19 23:27:07.460][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:07.461][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:07.463][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:27:07.464][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:27:07.465][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:07.467][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:07.469][ef$get] Asked field names are: mass.
biodb.TRACE[2024-12-19 23:27:07.470][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:07.471][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:07.472][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:07.474][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:07.475][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:07.477][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:07.479][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:07.480][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:27:07.482][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:27:07.483][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:07.484][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:07.486][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:27:07.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:27:07.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:07.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:07.493][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-19 23:27:07.495][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-19 23:27:07.496][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:07.497][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:07.499][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-19 23:27:07.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-19 23:27:07.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:07.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:07.507][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-19 23:27:07.509][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-19 23:27:07.511][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:07.513][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:07.515][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:07.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:07.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:07.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:07.523][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:07.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:07.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:07.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:07.530][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:07.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:07.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:07.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:07.538][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:07.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:07.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:07.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:07.552][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:07.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:07.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:07.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:07.558][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:07.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:07.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:07.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:07.564][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:07.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:07.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:07.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:07.569][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:07.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:07.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:07.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:07.575][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:07.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:07.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:07.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:07.584][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:07.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:07.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:07.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:07.591][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2024-12-19 23:27:07.593][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:07.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:07.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:07.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:07.599][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:07.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:07.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:07.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:07.605][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:07.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:07.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:07.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:07.613][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:07.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:07.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:07.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:07.621][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:07.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:07.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:07.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:07.629][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:07.630][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:07.632][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:07.647][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:07.649][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:07.651][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:07.653][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:27:07.655][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2024-12-19 23:27:07.658][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-12-19 23:27:07.661][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15441".
biodb.TRACE[2024-12-19 23:27:07.664][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-12-19 23:27:07.666][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-12-19 23:27:07.668][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-12-19 23:27:07.670][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-12-19 23:27:07.671][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-12-19 23:27:07.672][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-12-19 23:27:07.675][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:07.677][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:07.678][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:07.689][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:07.691][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:07.692][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:07.693][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:27:07.695][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15441".
biodb.DEBUG[2024-12-19 23:27:07.699][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-12-19 23:27:07.700][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-12-19 23:27:07.702][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15441".
biodb.TRACE[2024-12-19 23:27:08.070][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15441).
biodb.DEBUG[2024-12-19 23:27:08.389][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-12-19 23:27:08.393][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a6d4f93841bd82da498852b3a0a5692d.content"
biodb.TRACE[2024-12-19 23:27:08.407][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a6d4f93841bd82da498852b3a0a5692d.request"
biodb.TRACE[2024-12-19 23:27:08.412][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml"
biodb.DEBUG[2024-12-19 23:27:08.415][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-12-19 23:27:08.417][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-12-19 23:27:08.418][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-12-19 23:27:08.421][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:08.423][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:08.425][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:08.436][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:08.438][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:08.440][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:08.442][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[2024-12-19 23:27:08.446][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:08.449][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:08.451][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:08.452][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:08.455][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:08.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:08.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:08.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:08.463][ef$get] Asked field names are: charge.
biodb.TRACE[2024-12-19 23:27:08.465][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-19 23:27:08.467][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:08.469][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:08.471][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-12-19 23:27:08.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-19 23:27:08.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:08.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:08.479][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-19 23:27:08.482][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-19 23:27:08.483][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:08.485][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:08.488][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-19 23:27:08.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-19 23:27:08.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:08.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:08.497][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-19 23:27:08.499][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-19 23:27:08.501][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:08.502][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:08.505][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-19 23:27:08.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-19 23:27:08.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:08.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:08.513][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-19 23:27:08.515][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-19 23:27:08.517][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:08.519][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:08.522][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-19 23:27:08.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-19 23:27:08.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:08.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:08.530][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:27:08.532][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:27:08.534][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:08.536][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:08.539][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:27:08.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:27:08.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:08.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:08.547][ef$get] Asked field names are: mass.
biodb.TRACE[2024-12-19 23:27:08.549][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:08.551][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:08.553][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:08.555][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-12-19 23:27:08.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:08.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:08.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:08.563][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:08.566][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:08.567][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:08.569][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:08.572][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:08.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:08.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:08.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:08.580][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:27:08.582][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:27:08.584][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:08.586][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:08.589][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:27:08.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:27:08.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:08.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:08.607][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-19 23:27:08.610][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-19 23:27:08.612][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:08.614][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:08.616][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-19 23:27:08.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-19 23:27:08.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:08.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:08.624][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-19 23:27:08.626][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-19 23:27:08.628][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:08.630][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:08.632][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-19 23:27:08.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-19 23:27:08.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:08.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:08.639][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:08.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:08.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:08.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:08.644][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:08.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:08.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:08.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:08.649][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:08.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:08.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:08.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:08.654][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:08.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:08.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:08.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:08.659][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:08.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:08.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:08.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:08.665][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:08.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:08.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:08.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:08.670][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:08.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:08.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:08.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:08.675][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:08.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:08.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:08.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:08.681][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:08.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:08.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:08.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:08.686][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:08.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:08.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:08.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:08.690][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2024-12-19 23:27:08.692][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:08.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:08.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:08.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:08.698][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:08.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:08.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:08.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:08.704][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:08.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:08.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:08.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:08.710][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:08.711][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:08.713][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:08.732][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:08.734][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:08.737][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:08.739][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:27:08.741][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2024-12-19 23:27:08.743][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-12-19 23:27:08.746][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15442".
biodb.TRACE[2024-12-19 23:27:08.749][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-12-19 23:27:08.751][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-12-19 23:27:08.753][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-12-19 23:27:08.755][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-12-19 23:27:08.757][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-12-19 23:27:08.759][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-12-19 23:27:08.772][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:08.774][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:08.776][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:08.797][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:08.799][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:08.801][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:08.803][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:27:08.806][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15442".
biodb.DEBUG[2024-12-19 23:27:08.811][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-12-19 23:27:08.813][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-12-19 23:27:08.816][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15442".
biodb.TRACE[2024-12-19 23:27:09.166][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15442).
biodb.DEBUG[2024-12-19 23:27:09.484][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-12-19 23:27:09.487][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4c2c678eeeeb53d29ca6f3663ebee297.content"
biodb.TRACE[2024-12-19 23:27:09.492][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4c2c678eeeeb53d29ca6f3663ebee297.request"
biodb.TRACE[2024-12-19 23:27:09.496][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml"
biodb.DEBUG[2024-12-19 23:27:09.499][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-12-19 23:27:09.501][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-12-19 23:27:09.502][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-12-19 23:27:09.505][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:09.506][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:09.507][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:09.515][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:09.516][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:09.517][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:09.518][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:09.522][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:09.523][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:09.524][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:09.525][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:09.527][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:09.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:09.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:09.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:09.532][ef$get] Asked field names are: charge.
biodb.TRACE[2024-12-19 23:27:09.533][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-19 23:27:09.534][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:09.536][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:09.537][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-12-19 23:27:09.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-19 23:27:09.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:09.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:09.542][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-19 23:27:09.544][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-19 23:27:09.545][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:09.546][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:09.548][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-19 23:27:09.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-19 23:27:09.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:09.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:09.553][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-19 23:27:09.554][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-19 23:27:09.555][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:09.557][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:09.558][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-19 23:27:09.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-19 23:27:09.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:09.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:09.563][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-19 23:27:09.565][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-19 23:27:09.566][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:09.567][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:09.569][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-19 23:27:09.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-19 23:27:09.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:09.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:09.574][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:27:09.575][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:27:09.576][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:09.578][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:09.579][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:27:09.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:27:09.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:09.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:09.593][ef$get] Asked field names are: mass.
biodb.TRACE[2024-12-19 23:27:09.594][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:09.595][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:09.597][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:09.598][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-12-19 23:27:09.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:09.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:09.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:09.603][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:09.605][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:09.606][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:09.607][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:09.609][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:09.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:09.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:09.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:09.614][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:27:09.615][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:27:09.616][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:09.617][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:09.619][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:27:09.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:27:09.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:09.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:09.624][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-19 23:27:09.625][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-19 23:27:09.627][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:09.628][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:09.629][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-19 23:27:09.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-19 23:27:09.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:09.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:09.634][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-19 23:27:09.636][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-19 23:27:09.637][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:09.638][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:09.640][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-19 23:27:09.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-19 23:27:09.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:09.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:09.645][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:09.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:09.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:09.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:09.650][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:09.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:09.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:09.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:09.655][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:09.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:09.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:09.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:09.659][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:09.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:09.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:09.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:09.665][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:09.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:09.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:09.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:09.670][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:09.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:09.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:09.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:09.675][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:09.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:09.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:09.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:09.680][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:09.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:09.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:09.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:09.685][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:09.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:09.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:09.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:09.690][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:09.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:09.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:09.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:09.695][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2024-12-19 23:27:09.697][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:09.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:09.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:09.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:09.702][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:09.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:09.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:09.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:09.713][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:09.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:09.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:09.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:09.719][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:09.720][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:09.721][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:09.736][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:09.737][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:09.738][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:09.739][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:27:09.741][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2024-12-19 23:27:09.742][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-12-19 23:27:09.744][cch$loadFileContent] Trying to load 1 files from cache: [1]: "57310".
biodb.TRACE[2024-12-19 23:27:09.746][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-12-19 23:27:09.748][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-12-19 23:27:09.750][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-12-19 23:27:09.752][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-12-19 23:27:09.753][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-12-19 23:27:09.755][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-12-19 23:27:09.760][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:09.761][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:09.762][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:09.873][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:09.875][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:09.877][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:09.879][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:27:09.880][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=57310".
biodb.DEBUG[2024-12-19 23:27:09.883][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-12-19 23:27:09.885][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-12-19 23:27:09.887][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=57310".
biodb.TRACE[2024-12-19 23:27:10.224][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=57310).
biodb.DEBUG[2024-12-19 23:27:10.544][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-12-19 23:27:10.548][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e616043f98d9256021d0f5715e02d37b.content"
biodb.TRACE[2024-12-19 23:27:10.555][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e616043f98d9256021d0f5715e02d37b.request"
biodb.TRACE[2024-12-19 23:27:10.561][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml"
biodb.DEBUG[2024-12-19 23:27:10.564][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-12-19 23:27:10.567][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-12-19 23:27:10.569][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-12-19 23:27:10.572][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:10.574][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:10.576][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:10.588][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:10.591][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:10.593][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:10.594][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:10.598][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:10.601][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:10.603][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:10.604][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:10.607][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:10.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:10.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:10.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:10.615][ef$get] Asked field names are: charge.
biodb.TRACE[2024-12-19 23:27:10.617][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-19 23:27:10.619][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:10.620][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:10.623][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-12-19 23:27:10.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-19 23:27:10.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:10.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:10.631][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-19 23:27:10.633][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-19 23:27:10.634][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:10.636][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:10.639][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-19 23:27:10.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-19 23:27:10.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:10.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:10.657][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-19 23:27:10.659][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-19 23:27:10.661][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:10.663][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:10.664][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-19 23:27:10.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-19 23:27:10.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:10.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:10.670][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-19 23:27:10.671][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-19 23:27:10.672][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:10.673][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:10.675][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-19 23:27:10.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-19 23:27:10.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:10.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:10.684][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:27:10.686][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:27:10.688][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:10.690][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:10.692][ef$get] Asked field names are: mass.
biodb.TRACE[2024-12-19 23:27:10.693][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:10.694][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:10.695][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:10.697][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-12-19 23:27:10.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:10.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:10.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:10.702][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:10.704][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:10.706][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:10.707][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:10.710][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:10.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:10.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:10.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:10.718][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:27:10.720][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:27:10.723][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:10.725][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:10.727][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:27:10.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:27:10.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:10.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:10.735][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-19 23:27:10.736][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-19 23:27:10.738][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:10.740][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:10.742][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-19 23:27:10.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-19 23:27:10.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:10.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:10.748][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-19 23:27:10.749][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-19 23:27:10.750][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:10.751][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:10.753][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-19 23:27:10.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-19 23:27:10.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:10.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:10.759][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:10.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:10.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:10.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:10.764][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:10.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:10.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:10.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:10.769][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:10.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:10.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:10.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:10.776][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:10.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:10.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:10.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:10.785][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:10.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:10.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:10.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:10.793][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:10.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:10.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:10.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:10.799][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:10.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:10.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:10.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:10.811][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:10.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:10.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:10.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:10.816][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:10.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:10.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:10.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:10.821][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:10.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:10.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:10.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:10.826][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2024-12-19 23:27:10.828][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:10.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:10.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:10.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:10.833][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:10.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:10.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:10.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:10.838][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:10.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:10.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:10.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:10.843][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:10.844][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:10.846][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:10.855][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:10.857][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:10.859][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:10.861][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:27:10.863][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2024-12-19 23:27:10.865][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-12-19 23:27:10.868][cch$loadFileContent] Trying to load 1 files from cache: [1]: "66216".
biodb.TRACE[2024-12-19 23:27:10.871][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-12-19 23:27:10.873][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-12-19 23:27:10.875][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-12-19 23:27:10.877][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-12-19 23:27:10.879][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-12-19 23:27:10.880][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-12-19 23:27:10.885][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:10.887][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:10.888][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:10.905][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:10.907][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:10.908][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:10.910][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:27:10.913][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66216".
biodb.DEBUG[2024-12-19 23:27:10.918][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-12-19 23:27:10.920][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-12-19 23:27:10.922][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66216".
biodb.TRACE[2024-12-19 23:27:11.253][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66216).
biodb.DEBUG[2024-12-19 23:27:11.583][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-12-19 23:27:11.586][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a59039263bdeb010b063b31b1dcdd109.content"
biodb.TRACE[2024-12-19 23:27:11.591][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a59039263bdeb010b063b31b1dcdd109.request"
biodb.TRACE[2024-12-19 23:27:11.596][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml"
biodb.DEBUG[2024-12-19 23:27:11.599][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-12-19 23:27:11.601][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-12-19 23:27:11.602][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-12-19 23:27:11.604][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:11.605][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:11.606][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:11.626][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:11.627][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:11.628][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:11.629][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:11.632][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:11.642][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:11.644][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:11.646][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:11.648][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:11.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:11.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:11.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:11.656][ef$get] Asked field names are: charge.
biodb.TRACE[2024-12-19 23:27:11.657][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-19 23:27:11.658][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:11.660][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:11.662][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-12-19 23:27:11.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-19 23:27:11.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:11.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:11.669][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-19 23:27:11.670][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-19 23:27:11.672][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:11.673][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:11.674][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-19 23:27:11.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-19 23:27:11.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:11.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:11.680][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-19 23:27:11.681][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-19 23:27:11.682][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:11.684][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:11.685][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-19 23:27:11.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-19 23:27:11.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:11.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:11.690][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-19 23:27:11.692][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-19 23:27:11.693][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:11.695][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:11.697][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-19 23:27:11.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-19 23:27:11.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:11.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:11.704][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:27:11.705][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:27:11.707][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:11.708][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:11.710][ef$get] Asked field names are: mass.
biodb.TRACE[2024-12-19 23:27:11.711][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:11.712][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:11.713][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:11.715][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-12-19 23:27:11.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:11.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:11.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:11.720][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:11.722][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:11.723][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:11.724][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:11.727][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:11.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:11.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:11.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:11.732][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:27:11.734][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:27:11.735][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:11.736][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:11.739][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:27:11.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:27:11.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:11.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:11.747][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-19 23:27:11.749][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-19 23:27:11.751][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:11.752][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:11.755][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-19 23:27:11.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-19 23:27:11.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:11.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:11.762][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-19 23:27:11.763][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-19 23:27:11.765][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:11.767][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:11.769][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-19 23:27:11.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-19 23:27:11.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:11.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:11.775][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:11.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:11.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:11.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:11.781][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:11.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:11.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:11.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:11.795][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:11.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:11.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:11.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:11.802][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:11.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:11.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:11.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:11.807][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:11.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:11.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:11.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:11.813][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:11.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:11.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:11.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:11.819][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:11.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:11.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:11.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:11.827][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:11.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:11.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:11.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:11.833][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:11.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:11.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:11.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:11.841][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:11.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:11.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:11.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:11.849][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2024-12-19 23:27:11.851][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:11.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:11.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:11.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:11.859][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:11.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:11.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:11.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:11.867][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:11.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:11.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:11.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:11.874][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:11.876][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:11.877][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:11.892][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:11.894][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:11.895][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:11.896][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:27:11.897][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2024-12-19 23:27:11.899][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-12-19 23:27:11.901][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70860".
biodb.TRACE[2024-12-19 23:27:11.902][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-12-19 23:27:11.904][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-12-19 23:27:11.905][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-12-19 23:27:11.907][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-12-19 23:27:11.908][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-12-19 23:27:11.909][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-12-19 23:27:11.912][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:11.913][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:11.914][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:11.925][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:11.927][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:11.929][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:11.931][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:27:11.934][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70860".
biodb.DEBUG[2024-12-19 23:27:11.939][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-12-19 23:27:11.941][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-12-19 23:27:11.944][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70860".
biodb.TRACE[2024-12-19 23:27:12.273][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70860).
biodb.DEBUG[2024-12-19 23:27:12.596][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-12-19 23:27:12.606][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/02f38adb5262f39c1de7b27972a97d3a.content"
biodb.TRACE[2024-12-19 23:27:12.612][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/02f38adb5262f39c1de7b27972a97d3a.request"
biodb.TRACE[2024-12-19 23:27:12.616][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml"
biodb.DEBUG[2024-12-19 23:27:12.619][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-12-19 23:27:12.620][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-12-19 23:27:12.622][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-12-19 23:27:12.624][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:12.625][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:12.626][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:12.684][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:12.687][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:12.688][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:12.690][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:12.693][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:12.694][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:12.695][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:12.697][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:12.699][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:12.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:12.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:12.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:12.707][ef$get] Asked field names are: charge.
biodb.TRACE[2024-12-19 23:27:12.709][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-19 23:27:12.711][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:12.713][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:12.715][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-12-19 23:27:12.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-19 23:27:12.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:12.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:12.721][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-19 23:27:12.723][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-19 23:27:12.724][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:12.725][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:12.727][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-19 23:27:12.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-19 23:27:12.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:12.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:12.732][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-19 23:27:12.734][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-19 23:27:12.735][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:12.736][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:12.738][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-19 23:27:12.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-19 23:27:12.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:12.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:12.743][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-19 23:27:12.744][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-19 23:27:12.745][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:12.747][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:12.748][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-19 23:27:12.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-19 23:27:12.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:12.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:12.754][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:27:12.755][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:27:12.756][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:12.757][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:12.759][ef$get] Asked field names are: mass.
biodb.TRACE[2024-12-19 23:27:12.760][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:12.762][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:12.763][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:12.765][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-12-19 23:27:12.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:12.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:12.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:12.770][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:12.771][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:12.773][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:12.774][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:12.776][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:12.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:12.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:12.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:12.782][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:27:12.783][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:27:12.784][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:12.786][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:12.788][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:27:12.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:27:12.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:12.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:12.801][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-19 23:27:12.803][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-19 23:27:12.804][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:12.805][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:12.807][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-19 23:27:12.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-19 23:27:12.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:12.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:12.813][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-19 23:27:12.815][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-19 23:27:12.817][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:12.818][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:12.821][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-19 23:27:12.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-19 23:27:12.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:12.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:12.829][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:12.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:12.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:12.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:12.836][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:12.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:12.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:12.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:12.843][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:12.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:12.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:12.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:12.850][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:12.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:12.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:12.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:12.855][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:12.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:12.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:12.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:12.860][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:12.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:12.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:12.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:12.865][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:12.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:12.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:12.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:12.871][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:12.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:12.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:12.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:12.876][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:12.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:12.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:12.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:12.881][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:12.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:12.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:12.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:12.886][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2024-12-19 23:27:12.888][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:12.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:12.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:12.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:12.896][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:12.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:12.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:12.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:12.905][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:12.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:12.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:12.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:12.913][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:12.914][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:12.916][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:12.934][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:12.936][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:12.938][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:12.939][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:27:12.941][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2024-12-19 23:27:12.942][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-12-19 23:27:12.944][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70861".
biodb.TRACE[2024-12-19 23:27:12.946][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-12-19 23:27:12.948][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-12-19 23:27:12.949][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-12-19 23:27:12.950][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-12-19 23:27:12.952][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-12-19 23:27:12.959][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-12-19 23:27:12.962][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:12.964][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:12.965][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:12.977][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:12.979][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:12.980][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:12.982][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:27:12.984][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70861".
biodb.DEBUG[2024-12-19 23:27:12.988][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-12-19 23:27:12.990][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-12-19 23:27:12.993][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70861".
biodb.TRACE[2024-12-19 23:27:13.578][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70861).
biodb.DEBUG[2024-12-19 23:27:14.720][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-12-19 23:27:14.724][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2469ce985de4364ded27031736786fb4.content"
biodb.TRACE[2024-12-19 23:27:15.603][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2469ce985de4364ded27031736786fb4.request"
biodb.TRACE[2024-12-19 23:27:15.608][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml"
biodb.DEBUG[2024-12-19 23:27:15.626][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-12-19 23:27:15.629][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-12-19 23:27:15.631][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-12-19 23:27:16.786][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:16.788][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:16.789][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:17.309][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:18.029][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:18.031][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:18.032][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:18.036][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:18.037][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:18.039][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:18.040][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:18.042][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:18.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:18.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:18.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:18.048][ef$get] Asked field names are: charge.
biodb.TRACE[2024-12-19 23:27:18.050][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-19 23:27:18.087][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:18.089][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:18.091][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-12-19 23:27:18.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-19 23:27:18.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:18.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:18.104][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-19 23:27:18.106][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-19 23:27:18.107][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:18.108][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:18.110][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-19 23:27:18.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-19 23:27:18.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:18.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:18.117][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-19 23:27:18.118][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-19 23:27:18.120][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:18.121][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:18.123][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-19 23:27:18.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-19 23:27:18.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:18.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:18.129][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-19 23:27:18.131][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-19 23:27:18.132][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:18.134][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:18.136][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-19 23:27:18.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-19 23:27:18.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:18.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:18.142][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:27:18.144][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:27:18.145][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:18.146][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:18.148][ef$get] Asked field names are: mass.
biodb.TRACE[2024-12-19 23:27:18.164][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:18.166][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:18.168][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:18.170][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-12-19 23:27:18.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:18.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:18.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:18.604][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:18.606][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:18.608][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:18.609][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:18.611][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:18.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:18.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:18.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:18.618][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:27:18.619][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:27:18.621][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:18.622][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:18.624][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:27:18.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:27:18.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:18.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:18.900][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-19 23:27:18.901][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-19 23:27:18.903][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:18.905][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:18.907][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-19 23:27:18.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-19 23:27:18.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:18.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:18.913][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-19 23:27:18.915][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-19 23:27:18.917][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:19.451][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:19.454][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-19 23:27:19.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-19 23:27:19.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:19.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:19.462][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:19.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:19.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:19.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:19.470][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:19.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:19.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:19.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:19.478][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:20.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:20.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:20.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:20.176][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:20.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:20.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:20.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:20.182][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:20.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:20.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:20.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:20.188][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:20.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:20.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:20.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:20.512][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:20.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:20.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:20.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:20.519][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:20.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:20.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:20.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:20.525][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:20.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:20.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:20.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:20.531][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:20.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:20.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:20.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:20.538][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2024-12-19 23:27:20.539][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:20.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:20.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:20.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:20.546][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:20.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:20.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:20.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:20.559][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:20.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:20.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:20.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:20.566][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:20.567][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:20.569][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:21.249][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:21.251][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:21.359][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:21.361][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:27:21.363][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2024-12-19 23:27:21.365][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-12-19 23:27:21.367][cch$loadFileContent] Trying to load 1 files from cache: [1]: "78662".
biodb.TRACE[2024-12-19 23:27:21.370][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-12-19 23:27:21.371][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-12-19 23:27:21.373][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-12-19 23:27:21.375][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-12-19 23:27:21.376][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-12-19 23:27:21.378][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-12-19 23:27:21.459][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:21.461][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:21.462][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:21.499][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:21.501][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:21.595][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:21.597][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:27:21.599][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78662".
biodb.DEBUG[2024-12-19 23:27:21.603][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-12-19 23:27:21.604][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-12-19 23:27:21.607][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78662".
biodb.TRACE[2024-12-19 23:27:21.980][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78662).
biodb.DEBUG[2024-12-19 23:27:22.320][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-12-19 23:27:22.323][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2a2164b6127ca54c00efe5984f5864a.content"
biodb.TRACE[2024-12-19 23:27:22.329][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2a2164b6127ca54c00efe5984f5864a.request"
biodb.TRACE[2024-12-19 23:27:22.340][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml"
biodb.DEBUG[2024-12-19 23:27:22.356][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-12-19 23:27:22.358][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-12-19 23:27:22.360][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-12-19 23:27:22.362][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:22.364][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:22.365][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:22.415][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:22.416][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:22.418][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:22.419][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:22.423][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:22.425][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:22.426][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:22.427][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:22.430][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:22.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:22.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:22.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:22.436][ef$get] Asked field names are: charge.
biodb.TRACE[2024-12-19 23:27:22.438][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-19 23:27:22.439][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:22.441][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:22.443][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-12-19 23:27:22.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-19 23:27:22.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:22.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:22.449][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-19 23:27:22.451][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-19 23:27:22.452][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:22.454][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:22.456][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-19 23:27:22.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-19 23:27:22.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:22.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:22.492][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-19 23:27:22.494][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-19 23:27:22.496][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:22.497][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:22.499][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-19 23:27:22.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-19 23:27:22.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:22.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:22.506][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-19 23:27:22.507][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-19 23:27:22.530][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:22.532][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:22.534][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-19 23:27:22.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-19 23:27:22.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:22.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:22.545][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:27:22.547][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:27:22.549][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:22.550][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:22.555][ef$get] Asked field names are: mass.
biodb.TRACE[2024-12-19 23:27:22.557][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:22.558][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:22.560][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:22.562][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-12-19 23:27:22.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:22.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:22.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:22.568][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:22.570][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:22.572][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:22.573][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:22.575][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:22.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:22.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:22.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:22.581][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:27:22.583][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:27:22.584][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:22.586][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:22.588][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:27:22.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:27:22.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:22.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:22.595][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-19 23:27:22.597][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-19 23:27:22.598][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:22.600][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:22.602][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-19 23:27:22.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-19 23:27:22.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:22.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:22.608][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-19 23:27:22.610][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-19 23:27:22.611][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:22.613][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:22.615][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-19 23:27:22.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-19 23:27:22.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:22.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:22.621][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:22.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:22.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:22.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:22.629][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:22.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:22.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:22.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:22.636][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:22.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:22.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:22.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:22.644][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:22.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:22.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:22.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:22.651][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:22.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:22.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:22.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:22.660][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:22.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:22.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:22.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:22.668][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:22.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:22.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:22.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:22.683][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:22.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:22.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:22.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:22.690][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:22.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:22.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:22.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:22.697][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:22.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:22.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:22.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:22.703][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2024-12-19 23:27:22.705][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:22.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:22.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:22.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:22.711][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:22.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:22.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:22.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:22.717][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:22.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:22.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:22.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:22.723][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:22.725][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:22.726][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:22.838][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:22.840][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:22.841][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:22.843][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:27:22.845][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2024-12-19 23:27:22.847][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-12-19 23:27:22.851][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85084".
biodb.TRACE[2024-12-19 23:27:22.853][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-12-19 23:27:22.855][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-12-19 23:27:22.856][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-12-19 23:27:22.858][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-12-19 23:27:22.859][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-12-19 23:27:22.861][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-12-19 23:27:22.864][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:22.865][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:22.867][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:22.906][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:22.907][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:22.909][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:22.910][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:27:22.911][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85084".
biodb.DEBUG[2024-12-19 23:27:22.915][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-12-19 23:27:22.916][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-12-19 23:27:22.918][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85084".
biodb.TRACE[2024-12-19 23:27:23.239][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85084).
biodb.DEBUG[2024-12-19 23:27:23.558][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-12-19 23:27:23.563][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62216dc29cd0685dbac0a61545bda088.content"
biodb.TRACE[2024-12-19 23:27:23.571][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62216dc29cd0685dbac0a61545bda088.request"
biodb.TRACE[2024-12-19 23:27:23.576][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml"
biodb.DEBUG[2024-12-19 23:27:23.578][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-12-19 23:27:23.581][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-12-19 23:27:23.584][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-12-19 23:27:23.587][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:23.589][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:23.590][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:23.602][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:23.604][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:23.606][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:23.607][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[2024-12-19 23:27:23.612][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:23.614][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:23.628][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:23.630][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:23.633][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:23.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:23.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:23.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:23.642][ef$get] Asked field names are: charge.
biodb.TRACE[2024-12-19 23:27:23.644][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-19 23:27:23.645][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:23.647][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:23.649][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-12-19 23:27:23.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-19 23:27:23.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:23.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:23.655][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-19 23:27:23.657][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-19 23:27:23.658][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:23.660][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:23.662][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-19 23:27:23.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-19 23:27:23.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:23.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:23.670][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-19 23:27:23.672][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-19 23:27:23.674][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:23.676][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:23.678][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-19 23:27:23.681][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-19 23:27:23.683][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:23.684][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:23.687][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:27:23.689][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:27:23.691][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:23.693][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:23.695][ef$get] Asked field names are: mass.
biodb.TRACE[2024-12-19 23:27:23.697][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:23.699][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:23.701][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:23.704][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-12-19 23:27:23.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:23.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:23.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:23.712][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:23.715][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:23.717][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:23.718][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:23.721][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:23.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:23.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:23.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:23.729][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:27:23.731][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:27:23.733][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:23.735][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:23.737][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:27:23.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:27:23.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:23.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:23.746][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-19 23:27:23.748][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-19 23:27:23.750][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:23.752][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:23.754][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-19 23:27:23.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-19 23:27:23.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:23.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:23.763][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-19 23:27:23.765][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-19 23:27:23.767][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:23.769][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:23.771][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:23.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:23.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:23.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:23.779][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:23.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:23.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:23.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:23.787][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:23.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:23.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:23.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:23.796][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:23.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:23.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:23.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:23.804][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:23.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:23.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:23.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:23.822][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:23.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:23.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:23.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:23.831][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:23.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:23.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:23.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:23.839][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:23.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:23.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:23.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:23.847][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:23.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:23.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:23.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:23.855][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:23.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:23.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:23.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:23.863][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2024-12-19 23:27:23.865][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:23.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:23.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:23.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:23.874][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:23.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:23.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:23.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:23.882][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:23.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:23.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:23.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:23.890][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:23.892][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:23.894][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:23.906][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:23.908][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:23.910][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:23.912][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:27:23.914][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2024-12-19 23:27:23.916][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-12-19 23:27:23.920][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85086".
biodb.TRACE[2024-12-19 23:27:23.922][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-12-19 23:27:23.925][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-12-19 23:27:23.927][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-12-19 23:27:23.929][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-12-19 23:27:23.931][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-12-19 23:27:23.933][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-12-19 23:27:23.938][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:23.940][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:23.942][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:23.955][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:23.958][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:23.960][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:23.962][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:27:23.964][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85086".
biodb.DEBUG[2024-12-19 23:27:23.970][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-12-19 23:27:23.972][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-12-19 23:27:23.975][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85086".
biodb.TRACE[2024-12-19 23:27:24.304][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85086).
biodb.DEBUG[2024-12-19 23:27:24.626][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-12-19 23:27:24.631][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cf3472363c4a7effe355d93315025f8b.content"
biodb.TRACE[2024-12-19 23:27:24.638][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cf3472363c4a7effe355d93315025f8b.request"
biodb.TRACE[2024-12-19 23:27:24.644][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml"
biodb.DEBUG[2024-12-19 23:27:24.648][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-12-19 23:27:24.651][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-12-19 23:27:24.653][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-12-19 23:27:24.657][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:24.659][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:24.661][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:24.683][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:24.685][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:24.687][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:24.688][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:24.691][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:24.693][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:24.694][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:24.695][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:24.697][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:24.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:24.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:24.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:24.702][ef$get] Asked field names are: charge.
biodb.TRACE[2024-12-19 23:27:24.703][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-19 23:27:24.705][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:24.706][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:24.708][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-12-19 23:27:24.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-19 23:27:24.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:24.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:24.714][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-19 23:27:24.716][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-19 23:27:24.717][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:24.719][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:24.721][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-19 23:27:24.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-19 23:27:24.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:24.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:24.727][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-19 23:27:24.728][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-19 23:27:24.729][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:24.730][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:24.732][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-19 23:27:24.733][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-19 23:27:24.735][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:24.736][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:24.737][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:27:24.739][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:27:24.740][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:24.741][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:24.743][ef$get] Asked field names are: mass.
biodb.TRACE[2024-12-19 23:27:24.744][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:24.746][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:24.747][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:24.749][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-12-19 23:27:24.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:24.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:24.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:24.754][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:24.755][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:24.757][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:24.758][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:24.760][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:24.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:24.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:24.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:24.765][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:27:24.766][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:27:24.768][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:24.769][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:24.771][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:27:24.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:27:24.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:24.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:24.776][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-19 23:27:24.778][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-19 23:27:24.779][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:24.780][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:24.782][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-19 23:27:24.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-19 23:27:24.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:24.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:24.787][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-19 23:27:24.789][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-19 23:27:24.790][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:24.791][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:24.793][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:24.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:24.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:24.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:24.798][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:24.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:24.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:24.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:24.804][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:24.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:24.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:24.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:24.817][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:24.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:24.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:24.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:24.823][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:24.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:24.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:24.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:24.828][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:24.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:24.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:24.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:24.833][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:24.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:24.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:24.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:24.839][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:24.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:24.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:24.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:24.844][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:24.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:24.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:24.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:24.850][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:24.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:24.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:24.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:24.856][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2024-12-19 23:27:24.857][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:24.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:24.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:24.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:24.863][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:24.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:24.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:24.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:24.869][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:24.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:24.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:24.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:24.874][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:24.875][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:24.876][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:24.883][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:24.885][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:24.886][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:24.887][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:27:24.888][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2024-12-19 23:27:24.890][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-12-19 23:27:24.892][cch$loadFileContent] Trying to load 1 files from cache: [1]: "88123".
biodb.TRACE[2024-12-19 23:27:24.893][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-12-19 23:27:24.895][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-12-19 23:27:24.897][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-12-19 23:27:24.898][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-12-19 23:27:24.899][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-12-19 23:27:24.901][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-12-19 23:27:24.904][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:24.905][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:24.906][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:24.914][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:24.915][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:24.917][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:24.918][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:27:24.919][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88123".
biodb.DEBUG[2024-12-19 23:27:24.923][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-12-19 23:27:24.924][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-12-19 23:27:24.926][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88123".
biodb.TRACE[2024-12-19 23:27:25.256][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88123).
biodb.DEBUG[2024-12-19 23:27:25.570][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-12-19 23:27:25.573][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8e37f256f660b350650d4ca45d7cd291.content"
biodb.TRACE[2024-12-19 23:27:25.578][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8e37f256f660b350650d4ca45d7cd291.request"
biodb.TRACE[2024-12-19 23:27:25.592][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml"
biodb.DEBUG[2024-12-19 23:27:25.596][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-12-19 23:27:25.598][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-12-19 23:27:25.600][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-12-19 23:27:25.602][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:25.603][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:25.604][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:25.621][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:25.622][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:25.623][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:25.624][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:25.627][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:25.629][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:25.630][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:25.631][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:25.633][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:25.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:25.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:25.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:25.638][ef$get] Asked field names are: charge.
biodb.TRACE[2024-12-19 23:27:25.639][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-19 23:27:25.641][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:25.642][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:25.643][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-12-19 23:27:25.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-19 23:27:25.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:25.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:25.649][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-19 23:27:25.651][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-19 23:27:25.653][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:25.655][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:25.657][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-19 23:27:25.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-19 23:27:25.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:25.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:25.666][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-19 23:27:25.667][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-19 23:27:25.669][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:25.670][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:25.672][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-19 23:27:25.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-19 23:27:25.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:25.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:25.679][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-19 23:27:25.681][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-19 23:27:25.683][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:25.685][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:25.688][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-19 23:27:25.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-19 23:27:25.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:25.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:25.697][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:27:25.699][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:27:25.701][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:25.703][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:25.706][ef$get] Asked field names are: mass.
biodb.TRACE[2024-12-19 23:27:25.708][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:25.709][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:25.710][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:25.712][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-12-19 23:27:25.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:25.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:25.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:25.718][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:25.720][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:25.721][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:25.723][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:25.725][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:25.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:25.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:25.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:25.733][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:27:25.734][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:27:25.736][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:25.737][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:25.739][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:27:25.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:27:25.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:25.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:25.747][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-19 23:27:25.749][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-19 23:27:25.750][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:25.752][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:25.761][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-19 23:27:25.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-19 23:27:25.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:25.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:25.771][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-19 23:27:25.773][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-19 23:27:25.775][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:25.776][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:25.779][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-19 23:27:25.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-19 23:27:25.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:25.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:25.785][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:25.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:25.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:25.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:25.791][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:25.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:25.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:25.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:25.799][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:25.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:25.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:25.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:25.807][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:25.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:25.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:25.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:25.815][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:25.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:25.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:25.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:25.824][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:25.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:25.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:25.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:25.833][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:25.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:25.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:25.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:25.841][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:25.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:25.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:25.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:25.850][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:25.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:25.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:25.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:25.858][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:25.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:25.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:25.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:25.866][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2024-12-19 23:27:25.869][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:25.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:25.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:25.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:25.877][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:25.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:25.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:25.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:25.886][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:25.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:25.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:25.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:25.894][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:25.896][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:25.898][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:25.909][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:25.910][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:25.912][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:25.913][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:27:25.914][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2024-12-19 23:27:25.916][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-12-19 23:27:25.918][cch$loadFileContent] Trying to load 1 files from cache: [1]: "134117".
biodb.TRACE[2024-12-19 23:27:25.920][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-12-19 23:27:25.921][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-12-19 23:27:25.923][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-12-19 23:27:25.924][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-12-19 23:27:25.925][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-12-19 23:27:25.927][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-12-19 23:27:25.930][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:25.931][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:25.932][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:25.946][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:25.948][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:25.950][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:25.952][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:27:25.955][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=134117".
biodb.DEBUG[2024-12-19 23:27:25.960][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-12-19 23:27:25.962][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-12-19 23:27:25.964][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=134117".
biodb.TRACE[2024-12-19 23:27:26.303][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=134117).
biodb.DEBUG[2024-12-19 23:27:26.628][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-12-19 23:27:26.632][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8f998f0023bf19b8745b926f0b2992d7.content"
biodb.TRACE[2024-12-19 23:27:26.638][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8f998f0023bf19b8745b926f0b2992d7.request"
biodb.TRACE[2024-12-19 23:27:26.643][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml"
biodb.DEBUG[2024-12-19 23:27:26.646][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-12-19 23:27:26.649][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-12-19 23:27:26.651][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-12-19 23:27:26.654][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:26.656][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:26.657][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:26.665][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:26.667][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:26.668][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:26.669][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:26.673][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:26.674][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:26.675][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:26.677][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:26.679][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:26.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:26.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:26.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:26.687][ef$get] Asked field names are: charge.
biodb.TRACE[2024-12-19 23:27:26.690][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-19 23:27:26.691][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:26.693][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:26.696][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-12-19 23:27:26.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-19 23:27:26.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:26.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:26.704][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-19 23:27:26.706][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-19 23:27:26.708][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:26.710][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:26.713][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-19 23:27:26.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-19 23:27:26.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:26.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:26.721][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-19 23:27:26.723][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-19 23:27:26.725][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:26.727][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:26.730][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-19 23:27:26.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-19 23:27:26.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:26.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:26.739][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-19 23:27:26.741][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-19 23:27:26.743][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:26.745][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:26.747][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-19 23:27:26.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-19 23:27:26.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:26.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:26.756][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:27:26.758][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:27:26.760][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:26.762][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:26.765][ef$get] Asked field names are: mass.
biodb.TRACE[2024-12-19 23:27:26.767][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:26.769][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:26.771][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:26.774][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-12-19 23:27:26.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:26.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:26.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:26.795][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:26.798][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:26.800][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:26.802][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:26.805][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:26.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:26.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:26.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:26.814][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:27:26.816][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:27:26.818][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:26.820][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:26.823][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:27:26.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:27:26.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:26.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:26.831][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-19 23:27:26.834][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-19 23:27:26.836][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:26.838][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:26.840][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-19 23:27:26.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-19 23:27:26.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:26.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:26.849][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-19 23:27:26.851][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-19 23:27:26.853][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:26.855][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:26.857][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-19 23:27:26.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-19 23:27:26.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:26.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:26.866][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:26.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:26.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:26.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:26.875][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:26.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:26.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:26.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:26.884][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:26.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:26.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:26.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:26.892][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:26.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:26.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:26.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:26.900][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:26.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:26.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:26.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:26.908][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:26.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:26.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:26.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:26.917][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:26.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:26.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:26.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:26.925][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:26.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:26.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:26.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:26.933][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:26.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:26.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:26.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:26.939][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:26.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:26.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:26.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:26.944][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2024-12-19 23:27:26.945][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:26.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:26.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:26.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:26.951][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:26.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:26.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:26.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:26.960][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:26.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:26.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:26.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:26.970][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:26.971][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:26.981][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:26.993][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:26.995][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:26.996][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:26.997][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:27:26.999][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2024-12-19 23:27:27.001][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-12-19 23:27:27.003][cch$loadFileContent] Trying to load 1 files from cache: [1]: "138307".
biodb.TRACE[2024-12-19 23:27:27.006][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-12-19 23:27:27.007][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-12-19 23:27:27.009][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-12-19 23:27:27.010][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-12-19 23:27:27.012][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-12-19 23:27:27.013][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-12-19 23:27:27.018][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:27.020][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:27.022][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:27.033][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:27.035][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:27.036][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:27.038][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:27:27.040][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=138307".
biodb.DEBUG[2024-12-19 23:27:27.045][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-12-19 23:27:27.047][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-12-19 23:27:27.049][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=138307".
biodb.TRACE[2024-12-19 23:27:27.390][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=138307).
biodb.DEBUG[2024-12-19 23:27:27.707][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-12-19 23:27:27.711][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a2610bdf009c6327ccf7d519fff16ded.content"
biodb.TRACE[2024-12-19 23:27:27.717][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a2610bdf009c6327ccf7d519fff16ded.request"
biodb.TRACE[2024-12-19 23:27:27.721][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml"
biodb.DEBUG[2024-12-19 23:27:27.723][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-12-19 23:27:27.725][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-12-19 23:27:27.727][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-12-19 23:27:27.728][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:27.730][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:27.731][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:28.667][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:28.669][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:28.671][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:28.673][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:28.678][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:28.680][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:28.682][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:28.684][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:28.687][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:28.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:28.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:28.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:28.696][ef$get] Asked field names are: charge.
biodb.TRACE[2024-12-19 23:27:28.697][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-19 23:27:28.698][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:28.700][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:28.702][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-12-19 23:27:28.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-19 23:27:28.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:28.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:28.708][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-19 23:27:28.710][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-19 23:27:28.711][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:28.713][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:28.715][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-19 23:27:28.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-19 23:27:28.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:28.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:28.721][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-19 23:27:28.722][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-19 23:27:28.723][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:28.725][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:28.738][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-19 23:27:28.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-19 23:27:28.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:28.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:28.750][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-19 23:27:28.753][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-19 23:27:28.755][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:28.757][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:28.760][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-19 23:27:28.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-19 23:27:28.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:28.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:28.769][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:27:28.772][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:27:28.774][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:28.776][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:28.779][ef$get] Asked field names are: mass.
biodb.TRACE[2024-12-19 23:27:28.781][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:28.783][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:28.785][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:28.787][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-12-19 23:27:28.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:28.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:28.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:28.795][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:28.796][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:28.797][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:28.798][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:28.800][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:28.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:28.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:28.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:28.805][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:27:28.807][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:27:28.808][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:28.809][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:28.811][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:27:28.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:27:28.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:28.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:28.816][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-19 23:27:28.817][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-19 23:27:28.819][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:28.820][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:28.822][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-19 23:27:28.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-19 23:27:28.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:28.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:28.828][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-19 23:27:28.830][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-19 23:27:28.831][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:28.833][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:28.835][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-19 23:27:28.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-19 23:27:28.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:28.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:28.842][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:28.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:28.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:28.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:28.848][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:28.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:28.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:28.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:28.853][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:28.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:28.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:28.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:28.859][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:28.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:28.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:28.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:28.865][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:28.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:28.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:28.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:28.870][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:28.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:28.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:28.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:28.876][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:28.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:28.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:28.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:28.882][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:28.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:28.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:28.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:28.894][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:28.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:28.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:28.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:28.901][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:28.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:28.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:28.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:28.906][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2024-12-19 23:27:28.908][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:28.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:28.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:28.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:28.913][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:28.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:28.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:28.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:28.919][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:28.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:28.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:28.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:28.924][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:28.925][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:28.926][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:28.937][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:28.940][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:28.942][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:28.944][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:27:28.946][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2024-12-19 23:27:28.948][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-12-19 23:27:28.952][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176803".
biodb.TRACE[2024-12-19 23:27:28.955][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-12-19 23:27:28.957][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-12-19 23:27:28.959][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-12-19 23:27:28.961][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-12-19 23:27:28.964][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-12-19 23:27:28.966][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-12-19 23:27:28.971][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:28.973][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:28.975][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:28.986][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:28.988][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:28.990][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:28.992][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:27:28.995][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176803".
biodb.DEBUG[2024-12-19 23:27:29.000][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-12-19 23:27:29.003][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-12-19 23:27:29.005][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176803".
biodb.TRACE[2024-12-19 23:27:29.368][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176803).
biodb.DEBUG[2024-12-19 23:27:29.687][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-12-19 23:27:29.691][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/648921bf283f148f1437569ccee0fc41.content"
biodb.TRACE[2024-12-19 23:27:29.699][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/648921bf283f148f1437569ccee0fc41.request"
biodb.TRACE[2024-12-19 23:27:29.705][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml"
biodb.DEBUG[2024-12-19 23:27:29.709][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-12-19 23:27:29.711][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-12-19 23:27:29.714][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-12-19 23:27:29.717][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:29.719][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:29.721][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:29.733][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:29.735][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:29.737][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:29.739][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:29.744][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:29.746][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:29.748][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:29.750][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:29.753][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:29.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:29.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:29.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:29.775][ef$get] Asked field names are: charge.
biodb.TRACE[2024-12-19 23:27:29.777][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-19 23:27:29.779][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:29.782][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:29.784][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-12-19 23:27:29.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-19 23:27:29.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:29.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:29.793][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-19 23:27:29.795][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-19 23:27:29.797][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:29.799][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:29.801][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-19 23:27:29.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-19 23:27:29.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:29.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:29.809][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-19 23:27:29.812][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-19 23:27:29.813][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:29.815][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:29.818][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-19 23:27:29.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-19 23:27:29.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:29.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:29.826][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-19 23:27:29.828][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-19 23:27:29.830][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:29.832][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:29.834][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-19 23:27:29.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-19 23:27:29.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:29.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:29.843][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:27:29.845][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:27:29.847][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:29.849][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:29.852][ef$get] Asked field names are: mass.
biodb.TRACE[2024-12-19 23:27:29.854][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:29.856][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:29.858][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:29.860][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-12-19 23:27:29.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:29.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:29.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:29.869][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:29.871][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:29.873][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:29.875][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:29.878][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:29.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:29.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:29.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:29.887][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:27:29.889][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:27:29.891][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:29.893][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:29.896][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:27:29.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:27:29.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:29.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:29.904][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-19 23:27:29.907][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-19 23:27:29.909][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:29.911][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:29.913][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-19 23:27:29.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-19 23:27:29.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:29.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:29.922][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-19 23:27:29.924][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-19 23:27:29.926][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:29.928][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:29.931][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-19 23:27:29.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-19 23:27:29.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:29.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:29.940][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:29.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:29.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:29.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:29.948][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:29.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:29.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:29.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:29.964][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:29.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:29.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:29.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:29.972][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:29.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:29.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:29.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:29.979][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:29.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:29.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:29.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:29.987][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:29.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:29.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:29.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:29.996][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:29.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:30.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:30.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:30.004][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:30.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:30.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:30.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:30.013][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:30.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:30.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:30.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:30.020][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:30.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:30.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:30.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:30.026][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2024-12-19 23:27:30.027][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:30.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:30.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:30.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:30.033][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:30.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:30.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:30.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:30.038][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:30.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:30.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:30.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:30.044][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:30.045][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:30.046][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:30.054][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:30.056][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:30.057][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:30.058][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:27:30.060][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2024-12-19 23:27:30.061][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-12-19 23:27:30.064][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176962".
biodb.TRACE[2024-12-19 23:27:30.066][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-12-19 23:27:30.067][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-12-19 23:27:30.069][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-12-19 23:27:30.070][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-12-19 23:27:30.071][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-12-19 23:27:30.073][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-12-19 23:27:30.076][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:30.077][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:30.078][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:30.090][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:30.093][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:30.095][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:30.097][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:27:30.099][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176962".
biodb.DEBUG[2024-12-19 23:27:30.105][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-12-19 23:27:30.107][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-12-19 23:27:30.110][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176962".
biodb.TRACE[2024-12-19 23:27:30.457][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176962).
biodb.DEBUG[2024-12-19 23:27:30.771][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-12-19 23:27:30.774][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/881a0b9df4a64ff0258c2dc68959eb26.content"
biodb.TRACE[2024-12-19 23:27:30.788][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/881a0b9df4a64ff0258c2dc68959eb26.request"
biodb.TRACE[2024-12-19 23:27:30.793][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml"
biodb.DEBUG[2024-12-19 23:27:30.796][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-12-19 23:27:30.798][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-12-19 23:27:30.800][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-12-19 23:27:30.802][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:30.803][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:30.804][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:30.811][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:30.813][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:30.814][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:30.815][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:30.818][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:30.819][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:30.820][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:30.822][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:30.823][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:30.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:30.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:30.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:30.829][ef$get] Asked field names are: charge.
biodb.TRACE[2024-12-19 23:27:30.831][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-19 23:27:30.832][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:30.833][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:30.835][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-12-19 23:27:30.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-19 23:27:30.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:30.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:30.840][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-19 23:27:30.842][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-19 23:27:30.843][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:30.844][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:30.846][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-19 23:27:30.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-19 23:27:30.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:30.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:30.852][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-19 23:27:30.854][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-19 23:27:30.855][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:30.856][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:30.858][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-19 23:27:30.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-19 23:27:30.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:30.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:30.864][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-19 23:27:30.865][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-19 23:27:30.866][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:30.867][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:30.869][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-19 23:27:30.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-19 23:27:30.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:30.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:30.875][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:27:30.876][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:27:30.877][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:30.879][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:30.880][ef$get] Asked field names are: mass.
biodb.TRACE[2024-12-19 23:27:30.882][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:30.883][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:30.884][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:30.886][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-12-19 23:27:30.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:30.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:30.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:30.891][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:30.893][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:30.894][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:30.895][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:30.897][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:30.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:30.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:30.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:30.902][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:27:30.904][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:27:30.905][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:30.906][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:30.908][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:27:30.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:27:30.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:30.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:30.919][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-19 23:27:30.921][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-19 23:27:30.923][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:30.924][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:30.926][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-19 23:27:30.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-19 23:27:30.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:30.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:30.931][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-19 23:27:30.933][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-19 23:27:30.934][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:30.935][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:30.937][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-19 23:27:30.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-19 23:27:30.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:30.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:30.943][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:30.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:30.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:30.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:30.949][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:30.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:30.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:30.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:30.957][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:30.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:30.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:30.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:30.966][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:30.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:30.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:30.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:30.974][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:30.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:30.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:30.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:30.983][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:30.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:30.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:30.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:30.992][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:30.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:30.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:30.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:31.001][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:31.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:31.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:31.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:31.010][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:31.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:31.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:31.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:31.019][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:31.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:31.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:31.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:31.027][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2024-12-19 23:27:31.029][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:31.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:31.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:31.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:31.038][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:31.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:31.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:31.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:31.047][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:31.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:31.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:31.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:31.052][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:31.053][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:31.054][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:31.064][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:31.066][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:31.068][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:31.070][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:27:31.073][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2024-12-19 23:27:31.075][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-12-19 23:27:31.078][cch$loadFileContent] Trying to load 1 files from cache: [1]: "198655".
biodb.TRACE[2024-12-19 23:27:31.081][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-12-19 23:27:31.083][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-12-19 23:27:31.086][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-12-19 23:27:31.088][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-12-19 23:27:31.090][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-12-19 23:27:31.100][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-12-19 23:27:31.106][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:31.108][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:31.110][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:31.956][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:31.960][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:31.962][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:31.965][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:27:31.968][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=198655".
biodb.DEBUG[2024-12-19 23:27:31.975][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-12-19 23:27:31.977][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-12-19 23:27:31.980][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=198655".
biodb.TRACE[2024-12-19 23:27:32.312][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=198655).
biodb.DEBUG[2024-12-19 23:27:32.620][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-12-19 23:27:32.624][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2e175d021d3c86c1362fa584a90fbad.content"
biodb.TRACE[2024-12-19 23:27:32.630][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2e175d021d3c86c1362fa584a90fbad.request"
biodb.TRACE[2024-12-19 23:27:32.635][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml"
biodb.DEBUG[2024-12-19 23:27:32.638][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-12-19 23:27:32.640][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-12-19 23:27:32.641][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-12-19 23:27:32.644][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:32.645][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:32.647][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:32.656][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:32.658][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:32.659][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:32.660][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:32.663][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:32.664][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:32.665][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:32.667][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:32.668][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:32.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:32.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:32.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:32.673][ef$get] Asked field names are: charge.
biodb.TRACE[2024-12-19 23:27:32.675][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-19 23:27:32.676][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:32.677][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:32.679][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-12-19 23:27:32.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-19 23:27:32.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:32.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:32.684][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-19 23:27:32.685][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-19 23:27:32.687][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:32.688][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:32.690][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-19 23:27:32.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-19 23:27:32.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:32.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:32.695][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-19 23:27:32.696][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-19 23:27:32.698][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:32.699][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:32.700][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-19 23:27:32.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-19 23:27:32.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:32.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:32.706][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-19 23:27:32.707][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-19 23:27:32.708][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:32.709][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:32.711][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-19 23:27:32.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-19 23:27:32.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:32.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:32.716][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:27:32.717][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:27:32.718][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:32.897][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:32.899][ef$get] Asked field names are: mass.
biodb.TRACE[2024-12-19 23:27:32.900][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:32.902][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:32.903][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:32.905][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-12-19 23:27:32.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:32.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:32.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:32.910][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:32.911][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:32.913][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:32.914][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:32.915][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:32.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:32.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:32.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:32.920][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:27:32.922][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:27:32.923][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:32.924][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:32.926][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:27:32.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:27:32.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:32.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:32.931][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-19 23:27:32.933][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-19 23:27:32.934][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:32.936][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:32.939][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-19 23:27:32.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-19 23:27:32.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:32.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:32.947][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-19 23:27:32.949][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-19 23:27:32.951][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:32.954][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:32.956][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-19 23:27:32.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-19 23:27:32.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:32.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:32.965][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:32.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:32.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:32.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:32.974][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:32.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:32.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:32.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:32.979][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:32.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:32.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:32.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:32.984][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:32.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:32.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:32.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:32.990][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:32.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:32.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:32.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:32.994][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:32.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:32.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:32.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:33.000][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:33.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:33.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:33.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:33.005][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:33.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:33.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:33.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:33.010][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:33.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:33.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:33.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:33.014][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:33.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:33.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:33.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:33.019][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2024-12-19 23:27:33.021][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:33.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:33.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:33.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:33.026][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:33.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:33.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:33.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:33.030][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:33.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:33.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:33.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:33.035][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:33.036][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:33.038][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:33.128][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:33.131][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:33.132][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:33.133][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:27:33.135][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2024-12-19 23:27:33.136][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-12-19 23:27:33.138][cch$loadFileContent] Trying to load 1 files from cache: [1]: "215045".
biodb.TRACE[2024-12-19 23:27:33.140][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-12-19 23:27:33.142][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-12-19 23:27:33.144][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-12-19 23:27:33.147][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-12-19 23:27:33.149][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-12-19 23:27:33.151][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-12-19 23:27:33.157][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:33.159][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:33.161][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:33.174][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:33.176][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:33.179][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:33.181][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:27:33.184][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=215045".
biodb.DEBUG[2024-12-19 23:27:33.190][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-12-19 23:27:33.191][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-12-19 23:27:33.194][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=215045".
biodb.TRACE[2024-12-19 23:27:33.531][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=215045).
biodb.DEBUG[2024-12-19 23:27:33.847][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-12-19 23:27:33.852][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5fb598055294db64f197c61a6e36b01a.content"
biodb.TRACE[2024-12-19 23:27:33.858][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5fb598055294db64f197c61a6e36b01a.request"
biodb.TRACE[2024-12-19 23:27:33.862][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml"
biodb.DEBUG[2024-12-19 23:27:33.865][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-12-19 23:27:33.867][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-12-19 23:27:33.869][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-12-19 23:27:33.871][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:33.872][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:33.873][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:33.881][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:33.883][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:33.884][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:33.886][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:33.889][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:33.890][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:33.892][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:33.893][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:33.895][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:33.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:33.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:33.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:33.901][ef$get] Asked field names are: charge.
biodb.TRACE[2024-12-19 23:27:33.902][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-19 23:27:33.903][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:33.905][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:33.906][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-12-19 23:27:33.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-19 23:27:33.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:33.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:33.913][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-19 23:27:33.914][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-19 23:27:33.915][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:33.917][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:33.919][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-19 23:27:33.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-19 23:27:33.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:33.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:33.925][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-19 23:27:33.926][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-19 23:27:33.927][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:33.929][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:33.930][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-19 23:27:33.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-19 23:27:33.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:33.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:33.936][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-19 23:27:33.938][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-19 23:27:33.939][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:33.940][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:33.942][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-19 23:27:33.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-19 23:27:33.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:33.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:33.948][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:27:33.949][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:27:33.951][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:33.952][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:33.955][ef$get] Asked field names are: mass.
biodb.TRACE[2024-12-19 23:27:33.956][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:33.958][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:33.959][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:33.961][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-12-19 23:27:33.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:33.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:33.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:33.968][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:33.970][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:33.971][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:33.972][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:33.974][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:33.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:33.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:33.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:33.980][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:27:33.981][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:27:33.983][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:33.984][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:33.986][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:27:33.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:27:33.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:33.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:33.992][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-19 23:27:33.994][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-19 23:27:33.995][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:33.996][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:33.998][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-19 23:27:33.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-19 23:27:34.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:34.004][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-19 23:27:34.005][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-19 23:27:34.006][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.008][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:34.010][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-19 23:27:34.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-19 23:27:34.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:34.016][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:34.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:34.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:34.021][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:34.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:34.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:34.027][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:34.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:34.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:34.032][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:34.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:34.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:34.038][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:34.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:34.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:34.044][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:34.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:34.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:34.049][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:34.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:34.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:34.055][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:34.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:34.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:34.060][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:34.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:34.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:34.066][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:34.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:34.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:34.071][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2024-12-19 23:27:34.073][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:34.079][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:34.084][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:34.122][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-12-19 23:27:34.127][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-12-19 23:27:34.129][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-12-19 23:27:34.131][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-19 23:27:34.133][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-12-19 23:27:34.138][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:34.140][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:34.142][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:34.155][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:34.157][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:34.159][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:34.161][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:34.164][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:34.173][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:34.182][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:34.191][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:34.193][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:34.195][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:34.217][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:34.218][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:34.220][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:34.221][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:34.223][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:34.228][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:34.234][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:34.239][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:34.245][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:34.250][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:34.251][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:34.252][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:34.260][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:34.261][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:34.262][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:34.264][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:34.265][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:34.270][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:34.276][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:34.283][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:34.290][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:34.298][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:34.299][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:34.301][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:34.310][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:34.312][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:34.314][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:34.315][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:34.318][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:34.326][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:34.334][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:34.342][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:34.350][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:34.358][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:34.359][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:34.361][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:34.379][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:34.381][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:34.383][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:34.385][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:34.387][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:34.396][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:34.404][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:34.412][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:34.414][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:34.416][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:34.427][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:34.429][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:34.431][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:34.433][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:34.436][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:34.444][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:34.452][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:34.460][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:34.462][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:34.463][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:34.567][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:34.569][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:34.571][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:34.573][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:34.575][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:34.583][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:34.592][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:34.600][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:34.602][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:34.604][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:34.615][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:34.617][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:34.619][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:34.620][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:34.623][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:34.631][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:34.639][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:34.646][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:34.648][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:34.650][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:34.661][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:34.663][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:34.665][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:34.667][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:34.669][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:34.677][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:34.685][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:34.693][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:34.695][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:34.696][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:34.706][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:34.708][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:34.709][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:34.710][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:34.712][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:34.717][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:34.722][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:34.727][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:34.729][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:34.730][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:34.737][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:34.738][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:34.739][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:34.741][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:34.742][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:34.747][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:34.752][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:34.757][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:34.758][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:34.759][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:34.766][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:34.767][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:34.768][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:34.769][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:34.771][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:34.776][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:34.781][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:34.786][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:34.787][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:34.788][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:34.795][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:34.796][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:34.797][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:34.798][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:34.800][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:34.805][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:34.810][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:34.815][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:34.816][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:34.817][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:34.825][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:34.827][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:34.829][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:34.831][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:34.833][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:34.841][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:34.849][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:34.857][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:34.859][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:34.861][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:34.871][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:34.873][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:34.875][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:34.877][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:34.879][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:34.887][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:34.892][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:34.899][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:34.901][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:34.902][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:34.910][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:34.912][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:34.914][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:34.916][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:34.918][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:34.926][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:34.931][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:34.942][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:34.943][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:34.944][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:34.952][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:34.954][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:34.955][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:34.957][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:34.958][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:34.966][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:34.974][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:34.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:34.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:34.981][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:34.983][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:34.985][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:34.996][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:34.998][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:35.000][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:35.001][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:35.004][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:35.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:35.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:35.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:35.012][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:35.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:35.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:35.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:35.020][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:35.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:35.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:35.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:35.028][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:35.030][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:35.032][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:35.040][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:35.042][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:35.043][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:35.044][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:35.046][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:35.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:35.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:35.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:35.051][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:35.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:35.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:35.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:35.056][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:35.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:35.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:35.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:35.061][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:35.062][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:35.064][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:35.084][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:35.086][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:35.087][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:35.088][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:35.090][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:35.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:35.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:35.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:35.095][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:35.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:35.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:35.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:35.100][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:35.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:35.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:35.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:35.135][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:35.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:35.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:35.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:35.143][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:35.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:35.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:35.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:35.151][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:35.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:35.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:35.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:35.159][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:35.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:35.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:35.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:35.167][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:35.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:35.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:35.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:35.201][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-12-19 23:27:35.206][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-12-19 23:27:35.208][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-12-19 23:27:35.210][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-12-19 23:27:35.524][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-12-19 23:27:35.844][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-12-19 23:27:35.848][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c5171beada848a87ef2ffa10427d9be3.content"
biodb.TRACE[2024-12-19 23:27:35.856][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c5171beada848a87ef2ffa10427d9be3.request"
biodb.DEBUG[2024-12-19 23:27:35.863][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-12-19 23:27:35.869][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-12-19 23:27:35.871][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-12-19 23:27:35.875][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-12-19 23:27:36.188][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-12-19 23:27:36.522][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-12-19 23:27:36.527][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/750e63ff76a843f016511fa71c89113e.content"
biodb.TRACE[2024-12-19 23:27:36.535][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/750e63ff76a843f016511fa71c89113e.request"
biodb.DEBUG[2024-12-19 23:27:36.541][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:36.543][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:36.545][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:36.557][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:36.559][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:36.561][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:36.562][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:27:36.565][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2024-12-19 23:27:36.567][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-12-19 23:27:36.570][cch$loadFileContent] Trying to load 1 files from cache: [1]: "4648".
biodb.TRACE[2024-12-19 23:27:36.572][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-12-19 23:27:36.574][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-12-19 23:27:36.577][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-12-19 23:27:36.579][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-12-19 23:27:36.581][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-12-19 23:27:36.583][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-12-19 23:27:36.588][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:36.589][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:36.591][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:36.603][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:36.605][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:36.607][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:36.609][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:27:36.612][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4648".
biodb.DEBUG[2024-12-19 23:27:36.617][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-12-19 23:27:36.619][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-12-19 23:27:36.622][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4648".
biodb.TRACE[2024-12-19 23:27:36.959][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4648).
biodb.DEBUG[2024-12-19 23:27:37.284][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-12-19 23:27:37.288][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/844829d8afb6d338ebac906e62f6cb8e.content"
biodb.TRACE[2024-12-19 23:27:37.295][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/844829d8afb6d338ebac906e62f6cb8e.request"
biodb.TRACE[2024-12-19 23:27:37.301][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml"
biodb.DEBUG[2024-12-19 23:27:37.305][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-12-19 23:27:37.307][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-12-19 23:27:37.310][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-12-19 23:27:37.313][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:37.315][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:37.317][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:37.518][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:37.520][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:37.522][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:37.523][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.TRACE[2024-12-19 23:27:37.527][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:37.529][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:37.532][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:37.534][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:37.537][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:37.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:37.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:37.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:37.546][ef$get] Asked field names are: charge.
biodb.TRACE[2024-12-19 23:27:37.548][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-19 23:27:37.550][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:37.553][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:37.555][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-12-19 23:27:37.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-19 23:27:37.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:37.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:37.564][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-19 23:27:37.567][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-19 23:27:37.569][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:37.572][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:37.576][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-19 23:27:37.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-19 23:27:37.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:37.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:37.587][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-19 23:27:37.589][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-19 23:27:37.592][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:37.594][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:37.597][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-19 23:27:37.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-19 23:27:37.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:37.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:37.607][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-19 23:27:37.609][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-19 23:27:37.611][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:37.614][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:37.617][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-19 23:27:37.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-19 23:27:37.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:37.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:37.627][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:27:37.629][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:27:37.632][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:37.635][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:37.638][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:27:37.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:27:37.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:37.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:37.647][ef$get] Asked field names are: mass.
biodb.TRACE[2024-12-19 23:27:37.650][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:37.652][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:37.653][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:37.656][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-12-19 23:27:37.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:37.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:37.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:37.666][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:37.668][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:37.670][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:37.672][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:37.674][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:37.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:37.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:37.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:37.680][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:27:37.682][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:27:37.683][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:37.684][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:37.686][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:27:37.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:27:37.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:37.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:37.692][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-19 23:27:37.694][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-19 23:27:37.696][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:37.697][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:37.699][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-19 23:27:37.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-19 23:27:37.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:37.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:37.704][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-19 23:27:37.706][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-19 23:27:37.707][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:37.708][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:37.711][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-19 23:27:37.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-19 23:27:37.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:37.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:37.719][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:37.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:37.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:37.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:37.727][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:37.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:37.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:37.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:37.749][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:37.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:37.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:37.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:37.757][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:37.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:37.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:37.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:37.762][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:37.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:37.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:37.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:37.767][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:37.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:37.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:37.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:37.773][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:37.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:37.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:37.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:37.778][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:37.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:37.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:37.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:37.783][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:37.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:37.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:37.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:37.788][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:37.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:37.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:37.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:37.793][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2024-12-19 23:27:37.795][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:37.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:37.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:37.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:37.800][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:37.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:37.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:37.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:37.805][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:37.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:37.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:37.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:37.810][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:37.812][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:37.813][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:37.820][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:37.821][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:37.823][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:37.824][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:37.825][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:37.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:37.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:37.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:37.830][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:37.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:37.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:37.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:37.835][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:37.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:37.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:37.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:37.840][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:37.841][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:37.843][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:37.850][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:37.851][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:37.852][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:37.854][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:27:37.855][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2024-12-19 23:27:37.857][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-12-19 23:27:37.859][cch$loadFileContent] Trying to load 1 files from cache: [1]: "62447".
biodb.TRACE[2024-12-19 23:27:37.861][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-12-19 23:27:37.863][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-12-19 23:27:37.864][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-12-19 23:27:37.865][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-12-19 23:27:37.867][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-12-19 23:27:37.868][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-12-19 23:27:37.872][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:37.874][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:37.876][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:37.893][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:37.896][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:37.898][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:37.900][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:27:37.902][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=62447".
biodb.DEBUG[2024-12-19 23:27:37.907][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-12-19 23:27:37.909][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-12-19 23:27:37.912][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=62447".
biodb.TRACE[2024-12-19 23:27:38.247][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=62447).
biodb.DEBUG[2024-12-19 23:27:38.561][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-12-19 23:27:38.565][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ceadc6ac0ce91f601616e22be7c76851.content"
biodb.TRACE[2024-12-19 23:27:38.573][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ceadc6ac0ce91f601616e22be7c76851.request"
biodb.TRACE[2024-12-19 23:27:38.579][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml"
biodb.DEBUG[2024-12-19 23:27:38.583][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-12-19 23:27:38.585][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-12-19 23:27:38.588][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-12-19 23:27:38.591][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:38.593][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:38.595][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:38.607][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:38.610][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:38.612][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:38.613][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:38.616][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:38.618][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:38.619][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:38.620][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:38.622][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:38.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:38.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:38.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:38.628][ef$get] Asked field names are: charge.
biodb.TRACE[2024-12-19 23:27:38.629][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-19 23:27:38.631][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:38.633][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:38.635][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-12-19 23:27:38.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-19 23:27:38.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:38.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:38.643][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-19 23:27:38.645][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-19 23:27:38.646][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:38.648][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:38.651][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-19 23:27:38.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-19 23:27:38.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:38.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:38.658][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-19 23:27:38.660][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-19 23:27:38.662][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:38.664][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:38.667][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-19 23:27:38.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-19 23:27:38.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:38.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:38.674][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-19 23:27:38.676][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-19 23:27:38.678][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:38.680][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:38.682][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-19 23:27:38.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-19 23:27:38.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:38.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:38.690][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:27:38.692][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:27:38.694][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:38.696][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:38.698][ef$get] Asked field names are: mass.
biodb.TRACE[2024-12-19 23:27:38.699][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:38.700][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:38.702][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:38.704][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-12-19 23:27:38.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:38.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:38.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:38.710][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:38.712][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:38.714][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:38.715][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:38.718][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:38.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:38.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:38.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:38.726][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:27:38.728][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:27:38.730][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:38.732][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:38.734][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:27:38.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:27:38.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:38.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:38.741][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-19 23:27:38.743][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-19 23:27:38.744][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:38.745][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:38.747][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-19 23:27:38.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-19 23:27:38.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:38.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:38.755][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-19 23:27:38.757][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-19 23:27:38.759][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:38.761][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:38.763][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-19 23:27:38.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-19 23:27:38.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:38.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:38.771][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:38.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:38.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:38.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:38.779][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:38.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:38.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:38.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:38.787][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:38.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:38.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:38.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:38.795][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:38.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:38.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:38.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:38.802][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:38.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:38.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:38.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:38.810][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:38.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:38.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:38.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:38.818][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:38.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:38.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:38.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:38.826][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:38.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:38.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:38.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:38.834][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:38.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:38.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:38.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:38.841][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:38.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:38.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:38.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:38.849][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2024-12-19 23:27:38.850][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:38.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:38.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:38.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:38.855][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:38.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:38.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:38.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:38.860][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:38.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:38.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:38.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:38.892][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-12-19 23:27:38.896][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-12-19 23:27:38.899][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-12-19 23:27:38.901][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-19 23:27:38.903][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-12-19 23:27:38.907][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:38.908][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:38.909][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:38.916][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:38.917][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:38.918][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:38.920][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:38.922][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:38.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:38.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:38.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:38.930][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:38.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:38.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:38.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:38.937][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:38.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:38.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:38.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:38.942][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:38.943][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:38.944][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:38.953][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:38.955][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:38.958][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:38.960][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:38.962][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:38.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:38.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:38.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:38.968][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:38.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:38.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:38.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:38.976][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:38.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:38.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:38.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:38.984][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:38.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:38.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:38.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:38.992][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:38.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:38.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:38.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:39.013][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:39.014][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:39.015][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:39.229][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:39.231][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:39.233][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:39.235][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:39.238][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:39.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:39.246][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:39.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:39.254][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:39.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:39.262][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:39.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:39.270][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:39.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:39.278][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:39.280][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:39.281][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:39.292][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:39.294][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:39.296][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:39.298][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:39.301][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:39.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:39.309][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:39.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:39.316][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:39.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:39.323][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:39.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:39.331][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:39.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:39.338][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:39.340][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:39.341][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:39.351][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:39.352][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:39.353][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:39.354][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:39.356][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:39.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:39.362][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:39.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:39.370][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:39.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:39.377][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:39.378][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:39.380][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:39.390][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:39.392][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:39.394][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:39.396][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:39.398][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:39.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:39.406][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:39.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:39.414][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:39.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:39.421][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:39.423][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:39.425][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:39.456][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:39.459][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:39.461][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:39.463][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:39.466][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:39.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:39.474][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:39.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:39.482][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:39.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:39.490][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:39.492][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:39.494][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:39.505][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:39.507][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:39.509][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:39.511][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:39.514][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:39.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:39.523][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:39.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:39.532][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:39.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:39.540][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:39.542][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:39.543][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:39.555][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:39.557][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:39.559][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:39.561][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:39.563][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:39.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:39.572][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:39.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:39.581][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:39.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:39.589][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:39.591][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:39.593][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:39.604][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:39.607][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:39.609][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:39.610][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:39.613][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:39.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:39.621][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:39.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:39.627][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:39.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:39.634][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:39.636][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:39.638][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:39.648][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:39.650][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:39.651][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:39.652][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:39.654][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:39.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:39.660][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:39.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:39.667][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:39.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:39.672][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:39.673][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:39.674][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:39.682][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:39.683][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:39.684][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:39.686][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:39.687][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:39.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:39.692][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:39.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:39.697][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:39.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:39.702][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:39.704][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:39.705][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:39.713][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:39.714][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:39.715][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:39.716][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:39.718][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:39.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:39.725][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:39.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:39.732][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:39.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:39.740][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:39.742][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:39.743][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:39.754][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:39.756][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:39.758][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:39.760][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:39.762][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:39.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:39.769][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:39.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:39.774][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:39.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:39.779][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:39.780][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:39.781][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:39.788][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:39.789][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:39.791][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:39.792][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:39.793][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:39.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:39.798][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:39.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:39.803][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:39.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:39.810][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:39.811][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:39.813][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:39.824][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:39.826][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:39.828][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:39.830][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:39.832][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:39.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:39.840][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:39.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:39.848][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:39.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:39.855][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:39.857][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:39.859][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:39.870][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:39.872][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:39.874][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:39.875][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:39.878][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:39.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:39.886][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:39.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:39.894][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:39.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:39.901][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:39.903][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:39.905][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:39.924][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:39.926][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:39.928][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:39.930][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:39.933][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:39.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:39.941][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:39.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:39.949][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:39.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:39.957][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:39.959][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:39.961][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:39.973][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:39.975][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:39.977][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:39.979][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:39.982][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:39.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:39.990][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:39.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:39.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:39.998][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:40.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:40.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:40.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:40.005][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:40.007][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:40.008][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:40.019][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:40.021][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:40.023][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:40.025][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:40.028][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:40.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:40.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:40.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:40.037][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:40.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:40.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:40.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:40.045][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:40.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:40.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:40.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:40.082][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.INFO [2024-12-19 23:27:40.086][self$getFolderPath] Create cache folder "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649" for "chebi-0c5076ac2a43d16dbce503a44b09f649".
biodb.DEBUG[2024-12-19 23:27:40.088][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-12-19 23:27:40.090][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-12-19 23:27:40.094][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL%20NAMES&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-12-19 23:27:40.552][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL%20NAMES&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-12-19 23:27:41.116][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-12-19 23:27:41.120][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content"
biodb.TRACE[2024-12-19 23:27:41.127][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.request"
biodb.DEBUG[2024-12-19 23:27:41.134][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:41.136][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:41.138][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:41.148][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:41.149][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:41.151][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:41.153][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:41.155][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:41.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:41.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:41.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:41.162][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:41.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:41.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:41.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:41.168][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:41.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:41.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:41.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:41.175][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:41.177][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:41.179][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:41.188][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:41.189][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:41.191][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:41.192][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:41.194][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:41.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:41.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:41.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:41.199][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:41.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:41.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:41.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:41.208][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:41.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:41.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:41.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:41.214][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:41.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:41.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:41.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:41.219][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:41.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:41.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:41.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:41.225][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:41.226][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:41.227][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:42.625][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:42.627][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:42.630][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:42.632][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:42.634][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:42.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:42.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:42.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:42.644][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:42.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:42.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:42.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:42.653][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:42.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:42.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:42.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:42.661][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:42.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:42.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:42.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:42.667][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:42.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:42.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:42.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:42.673][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:42.674][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:42.675][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:42.765][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:42.767][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:42.769][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:42.771][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:42.773][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:42.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:42.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:42.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:42.781][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:42.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:42.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:42.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:42.788][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:42.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:42.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:42.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:42.796][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:42.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:42.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:42.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:42.805][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:42.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:42.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:42.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:42.813][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:42.815][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:42.817][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:42.827][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:42.829][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:42.831][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:42.833][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:42.835][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:42.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:42.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:42.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:42.841][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:42.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:42.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:42.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:42.847][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:42.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:42.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:42.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:42.852][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:42.854][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:42.855][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:42.865][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:42.867][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:42.869][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:42.871][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:42.873][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:42.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:42.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:42.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:42.880][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:42.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:42.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:42.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:42.888][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:42.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:42.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:42.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:42.897][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:42.899][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:42.901][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:42.914][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:42.916][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:42.918][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:42.920][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:42.923][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:42.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:42.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:42.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:42.932][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:42.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:42.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:42.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:42.940][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:42.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:42.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:42.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:42.949][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:42.950][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:42.952][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:42.964][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:42.966][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:42.968][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:42.971][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:42.973][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:42.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:42.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:42.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:42.982][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:42.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:42.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:42.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:42.990][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:42.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:42.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:42.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:42.998][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:43.000][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:43.001][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:43.013][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:43.015][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:43.016][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:43.017][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:43.018][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:43.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:43.023][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:43.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:43.029][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:43.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:43.037][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:43.038][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:43.039][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:43.049][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:43.052][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:43.054][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:43.056][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:43.058][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:43.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:43.066][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:43.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:43.074][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:43.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:43.083][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:43.084][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:43.086][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:43.106][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:43.111][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:43.113][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:43.115][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:43.117][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:43.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:43.126][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:43.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:43.134][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:43.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:43.142][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:43.144][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:43.146][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:43.157][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:43.159][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:43.161][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:43.163][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:43.166][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:43.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:43.174][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:43.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:43.183][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:43.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:43.190][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:43.192][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:43.194][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:43.205][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:43.207][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:43.208][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:43.209][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:43.211][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:43.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:43.217][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:43.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:43.223][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:43.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:43.230][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:43.231][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:43.232][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:43.239][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:43.241][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:43.242][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:43.243][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:43.245][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:43.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:43.252][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:43.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:43.260][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:43.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:43.265][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:43.266][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:43.268][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:43.275][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:43.277][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:43.278][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:43.279][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:43.282][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:43.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:43.289][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:43.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:43.294][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:43.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:43.300][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:43.301][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:43.302][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:43.310][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:43.311][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:43.312][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:43.314][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:43.315][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:43.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:43.322][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:43.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:43.330][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:43.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:43.339][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:43.340][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:43.342][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:43.354][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:43.356][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:43.358][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:43.360][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:43.363][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:43.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:43.372][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:43.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:43.380][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:43.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:43.387][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:43.389][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:43.391][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:43.401][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:43.403][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:43.405][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:43.407][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:43.409][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:43.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:43.418][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:43.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:43.425][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:43.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:43.434][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:43.435][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:43.437][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:43.746][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:43.748][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:43.749][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:43.751][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:43.752][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:43.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:43.757][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:43.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:43.762][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:43.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:43.768][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:43.769][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:43.771][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:43.779][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:43.781][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:43.782][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:43.783][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:43.785][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:43.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:43.793][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:43.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:43.801][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:43.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:43.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:43.845][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-12-19 23:27:43.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-12-19 23:27:43.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:43.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-12-19 23:27:43.873][biodb::testThat]
biodb.INFO [2024-12-19 23:27:43.876][biodb::testThat] Running test function test_annotateMzValues_input_vector (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2024-12-19 23:27:43.878][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-12-19 23:27:43.880][biodb::testThat]
biodb.TRACE[2024-12-19 23:27:43.886][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-12-19 23:27:43.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-12-19 23:27:43.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:43.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:43.891][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:43.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:43.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:43.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:43.896][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:43.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:43.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:43.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:43.901][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:43.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:43.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:43.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:43.906][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:43.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:43.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:43.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:43.915][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:43.916][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:43.917][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:43.927][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:43.928][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:43.930][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:43.931][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:27:43.934][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-12-19 23:27:43.938][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-12-19 23:27:43.939][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-12-19 23:27:43.942][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-12-19 23:27:44.265][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-12-19 23:27:44.593][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-12-19 23:27:44.598][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content"
biodb.TRACE[2024-12-19 23:27:44.605][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.request"
biodb.DEBUG[2024-12-19 23:27:44.611][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:44.612][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:44.614][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:44.623][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:44.625][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:44.627][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:44.629][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:44.631][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:44.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:44.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:44.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:44.636][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:44.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:44.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:44.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:44.641][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:44.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:44.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:44.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:44.648][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-12-19 23:27:44.653][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-12-19 23:27:44.655][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-12-19 23:27:44.659][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-12-19 23:27:44.973][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-12-19 23:27:45.283][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.INFO [2024-12-19 23:27:45.287][self$getFolderPath] Create cache folder "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649" for "chebi-0c5076ac2a43d16dbce503a44b09f649".
biodb.TRACE[2024-12-19 23:27:45.291][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content"
biodb.TRACE[2024-12-19 23:27:45.299][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.request"
biodb.DEBUG[2024-12-19 23:27:45.305][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:45.307][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:45.309][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:45.320][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:45.322][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:45.324][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:45.326][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:45.328][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:45.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:45.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:45.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:45.350][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:45.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:45.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:45.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:45.359][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:45.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:45.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:45.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:45.366][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:45.368][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:45.370][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:45.380][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:45.382][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:45.384][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:45.386][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:45.389][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:45.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:45.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:45.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:45.397][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:45.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:45.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:45.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:45.405][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:45.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:45.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:45.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:45.412][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-12-19 23:27:45.415][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:45.417][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:45.419][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:45.429][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:45.431][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:45.433][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:45.435][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[2024-12-19 23:27:45.437][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:45.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:45.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:45.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:45.445][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:45.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:45.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:45.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:45.453][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:45.455][private$selectFields]
biodb.TRACE[2024-12-19 23:27:45.456][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-12-19 23:27:45.458][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-12-19 23:27:45.460][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:45.462][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:45.464][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:45.466][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:45.467][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:45.469][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:45.471][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:45.473][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:45.475][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:45.477][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:45.479][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:45.481][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:45.483][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:45.484][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:45.486][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:45.488][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-12-19 23:27:45.490][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:45.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:45.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:45.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:45.498][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:45.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:45.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:45.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:45.506][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:45.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:45.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:45.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:45.529][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2024-12-19 23:27:45.531][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:45.532][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:45.534][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:45.545][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:45.547][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:45.549][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:45.551][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:45.554][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:45.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:45.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:45.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:45.562][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:45.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:45.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:45.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:45.570][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:45.572][private$selectFields]
biodb.TRACE[2024-12-19 23:27:45.574][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-12-19 23:27:45.576][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-12-19 23:27:45.578][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:45.580][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:45.583][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:45.585][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:45.587][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:45.589][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:45.591][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:45.593][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:45.595][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:45.597][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:45.599][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:45.601][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:45.603][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:45.605][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:45.607][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:45.609][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-12-19 23:27:45.611][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:45.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:45.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:45.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:45.619][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:45.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:45.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:45.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:45.628][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:45.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:45.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:45.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:45.637][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-12-19 23:27:45.639][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:45.641][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:45.643][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:45.650][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:45.652][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:45.654][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:45.656][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:45.658][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:45.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:45.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:45.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:45.666][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:45.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:45.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:45.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:45.674][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:45.676][private$selectFields]
biodb.TRACE[2024-12-19 23:27:45.678][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-12-19 23:27:45.680][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-12-19 23:27:45.682][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:45.684][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:45.686][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:45.688][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:45.690][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:45.692][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:45.694][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:45.696][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:45.698][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:45.700][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:45.702][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:45.704][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:45.706][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:45.708][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:45.710][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:45.712][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-12-19 23:27:45.714][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:45.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:45.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:45.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:45.722][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:45.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:45.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:45.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:45.730][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:45.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:45.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:45.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:45.738][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2024-12-19 23:27:45.740][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-12-19 23:27:45.742][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-12-19 23:27:45.772][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:45.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:45.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:45.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:45.781][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:45.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:45.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:45.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:45.789][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:45.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:45.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:45.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:45.797][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:45.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:45.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:45.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:45.875][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:45.877][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:45.879][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:45.889][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:45.891][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:45.893][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:45.895][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:27:45.900][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-12-19 23:27:45.906][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-12-19 23:27:45.907][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-12-19 23:27:45.911][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-12-19 23:27:46.238][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-12-19 23:27:46.557][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-12-19 23:27:46.560][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content"
biodb.TRACE[2024-12-19 23:27:46.565][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.request"
biodb.DEBUG[2024-12-19 23:27:46.570][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-12-19 23:27:46.574][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-12-19 23:27:46.576][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-12-19 23:27:46.579][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-12-19 23:27:46.898][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-12-19 23:27:47.207][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-12-19 23:27:47.211][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content"
biodb.TRACE[2024-12-19 23:27:47.219][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.request"
biodb.DEBUG[2024-12-19 23:27:47.225][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:47.227][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:47.229][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:47.240][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:47.251][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:47.257][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:47.258][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:47.260][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:47.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:47.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:47.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:47.265][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:47.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:47.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:47.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:47.272][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:47.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:47.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:47.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:47.280][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:47.281][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:47.283][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:47.294][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:47.296][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:47.298][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:47.300][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.TRACE[2024-12-19 23:27:47.302][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:47.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:47.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:47.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:47.308][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:47.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:47.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:47.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:47.313][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:47.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:47.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:47.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:47.320][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:47.322][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:47.324][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:47.332][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:47.333][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:47.335][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:47.336][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:47.339][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:47.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:47.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:47.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:47.344][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:47.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:47.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:47.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:47.349][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:47.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:47.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:47.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:47.395][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-12-19 23:27:47.437][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:47.439][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:47.441][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:47.450][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:47.451][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:47.453][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:47.454][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:47.455][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:47.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:47.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:47.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:47.460][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:47.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:47.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:47.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:47.465][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:47.466][private$selectFields]
biodb.TRACE[2024-12-19 23:27:47.467][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-12-19 23:27:47.469][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-12-19 23:27:47.470][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:47.471][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:47.472][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:47.473][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:47.474][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:47.476][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:47.477][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:47.478][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:47.479][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:47.480][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:47.482][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:47.483][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:47.484][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:47.485][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:47.486][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:47.488][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-12-19 23:27:47.489][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:47.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:47.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:47.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:47.494][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:47.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:47.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:47.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:47.499][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:47.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:47.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:47.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:47.504][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2024-12-19 23:27:47.505][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:47.507][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:47.508][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:47.515][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:47.516][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:47.518][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:47.519][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:47.536][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:47.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:47.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:47.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:47.542][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:47.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:47.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:47.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:47.565][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:47.566][private$selectFields]
biodb.TRACE[2024-12-19 23:27:47.567][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-12-19 23:27:47.569][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-12-19 23:27:47.570][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:47.571][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:47.572][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:47.574][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:47.575][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:47.576][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:47.577][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:47.578][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:47.580][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:47.581][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:47.591][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:47.592][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:47.593][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:47.595][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:47.596][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:47.597][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-12-19 23:27:47.598][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:47.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:47.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:47.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:47.603][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:47.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:47.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:47.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:47.608][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:47.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:47.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:47.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:47.613][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-12-19 23:27:47.615][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:47.616][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:47.617][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:47.624][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:47.625][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:47.626][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:47.628][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:47.629][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:47.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:47.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:47.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:47.634][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:47.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:47.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:47.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:47.639][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:47.640][private$selectFields]
biodb.TRACE[2024-12-19 23:27:47.641][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-12-19 23:27:47.642][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-12-19 23:27:47.643][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:47.645][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:47.646][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:47.647][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:47.648][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:47.650][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:47.651][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:47.652][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:47.653][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:47.654][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:47.656][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:47.657][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:47.658][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:47.659][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:47.661][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:47.662][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-12-19 23:27:47.664][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:47.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:47.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:47.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:47.669][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:47.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:47.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:47.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:47.674][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:47.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:47.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:47.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:47.679][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2024-12-19 23:27:47.681][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-12-19 23:27:47.682][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-12-19 23:27:47.693][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-12-19 23:27:47.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-12-19 23:27:47.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:47.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-12-19 23:27:47.704][biodb::testThat]
biodb.INFO [2024-12-19 23:27:47.711][biodb::testThat] Running test function test_annotateMzValues_ppm_tol (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2024-12-19 23:27:47.713][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-12-19 23:27:47.714][biodb::testThat]
biodb.TRACE[2024-12-19 23:27:47.718][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-12-19 23:27:47.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-12-19 23:27:47.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:47.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:47.723][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:47.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:47.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:47.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:47.728][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:47.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:47.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:47.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:47.733][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:47.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:47.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:47.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:47.737][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:47.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:47.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:47.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:47.745][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:47.746][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:47.747][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:47.754][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:47.755][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:47.757][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:47.758][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:27:47.761][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-12-19 23:27:47.765][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-12-19 23:27:47.766][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-12-19 23:27:47.768][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-12-19 23:27:48.085][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-12-19 23:27:48.512][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-12-19 23:27:48.515][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content"
biodb.TRACE[2024-12-19 23:27:48.520][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.request"
biodb.DEBUG[2024-12-19 23:27:48.524][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:48.525][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:48.526][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:48.533][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:48.535][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:48.536][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:48.537][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:48.538][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:48.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:48.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:48.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:48.543][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:48.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:48.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:48.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:48.548][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:48.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:48.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:48.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:48.554][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-12-19 23:27:48.558][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-12-19 23:27:48.559][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2024-12-19 23:27:48.561][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-19 23:27:48.564][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2024-12-19 23:27:48.566][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:48.567][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:48.569][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:48.576][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:48.577][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:48.578][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:48.579][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:48.581][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:48.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:48.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:48.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:48.590][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:48.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:48.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:48.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:48.598][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:48.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:48.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:48.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:48.606][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:48.607][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:48.608][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:48.618][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:48.620][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:48.622][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:48.623][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:48.626][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:48.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:48.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:48.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:48.634][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:48.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:48.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:48.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:48.642][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:48.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:48.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:48.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:48.647][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-12-19 23:27:48.649][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:48.650][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:48.651][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:48.661][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:48.663][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:48.665][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:48.667][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:48.669][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:48.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:48.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:48.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:48.675][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:48.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:48.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:48.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:48.682][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:48.684][private$selectFields]
biodb.TRACE[2024-12-19 23:27:48.686][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-12-19 23:27:48.688][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-12-19 23:27:48.689][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:48.690][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:48.692][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:48.693][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:48.694][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:48.696][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:48.697][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:48.699][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:48.700][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:48.702][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:48.703][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:48.704][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:48.706][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:48.708][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:48.709][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:48.711][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-12-19 23:27:48.713][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:48.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:48.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:48.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:48.722][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:48.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:48.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:48.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:48.728][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:48.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:48.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:48.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:48.733][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2024-12-19 23:27:48.734][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:48.735][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:48.736][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:48.745][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:48.747][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:48.748][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:48.749][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:48.750][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:48.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:48.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:48.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:48.757][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:48.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:48.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:48.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:48.762][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:48.763][private$selectFields]
biodb.TRACE[2024-12-19 23:27:48.764][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-12-19 23:27:48.765][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-12-19 23:27:48.767][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:48.768][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:48.769][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:48.770][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:48.771][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:48.773][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:48.774][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:48.775][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:48.776][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:48.777][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:48.779][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:48.780][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:48.781][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:48.782][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:48.783][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:48.785][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-12-19 23:27:48.786][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:48.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:48.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:48.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:48.791][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:48.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:48.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:48.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:48.796][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:48.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:48.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:48.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:48.801][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-12-19 23:27:48.802][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:48.803][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:48.804][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:48.812][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:48.813][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:48.814][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:48.815][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:48.817][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:48.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:48.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:48.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:48.822][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:48.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:48.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:48.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:48.827][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:48.828][private$selectFields]
biodb.TRACE[2024-12-19 23:27:48.829][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-12-19 23:27:48.830][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-12-19 23:27:48.832][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:48.833][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:48.834][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:48.835][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:48.837][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:48.838][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:48.839][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:48.840][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:48.841][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:48.843][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:48.844][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:48.845][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:48.846][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:48.847][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:48.849][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:48.850][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-12-19 23:27:48.851][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:48.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:48.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:48.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:48.856][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:48.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:48.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:48.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:48.861][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:48.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:48.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:48.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:48.866][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2024-12-19 23:27:48.868][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-12-19 23:27:48.869][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-12-19 23:27:48.880][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:48.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:48.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:48.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:48.885][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:48.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:48.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:48.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:48.891][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:48.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:48.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:48.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:48.896][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:48.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:48.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:48.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:48.903][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:48.905][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:48.906][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:48.914][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:48.916][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:48.917][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:48.918][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:27:48.921][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-12-19 23:27:48.925][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-12-19 23:27:48.927][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2024-12-19 23:27:48.928][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-19 23:27:48.931][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2024-12-19 23:27:48.935][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-12-19 23:27:48.939][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-12-19 23:27:48.941][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2024-12-19 23:27:48.944][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-19 23:27:48.948][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2024-12-19 23:27:48.952][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:48.954][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:48.956][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:49.044][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:49.046][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:49.048][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:49.050][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:49.053][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:49.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:49.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:49.061][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:49.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:49.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:49.069][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:49.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:49.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:49.077][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:49.078][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:49.080][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:49.091][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:49.093][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:49.095][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:49.097][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:49.099][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:49.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:49.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:49.108][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:49.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:49.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:49.116][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:49.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:49.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:49.124][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:49.126][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:49.128][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:49.138][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:49.141][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:49.142][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:49.144][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:49.147][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:49.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:49.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:49.155][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:49.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:49.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:49.162][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:49.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:49.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:49.171][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-12-19 23:27:49.173][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:49.175][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:49.177][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:49.186][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:49.187][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:49.188][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:49.189][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:49.191][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:49.196][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:49.201][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:49.202][private$selectFields]
biodb.TRACE[2024-12-19 23:27:49.203][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-12-19 23:27:49.205][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-12-19 23:27:49.206][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:49.207][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.209][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.210][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.211][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:49.212][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.214][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.215][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.216][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:49.217][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:49.219][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:49.220][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.221][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.223][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.224][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:49.225][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-12-19 23:27:49.226][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:49.231][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:49.237][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:49.242][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2024-12-19 23:27:49.243][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:49.244][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:49.245][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:49.252][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:49.254][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:49.255][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:49.256][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:49.257][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:49.265][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:49.273][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:49.275][private$selectFields]
biodb.TRACE[2024-12-19 23:27:49.277][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-12-19 23:27:49.279][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-12-19 23:27:49.281][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:49.283][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.285][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.286][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.288][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:49.290][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.292][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.294][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.296][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:49.298][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:49.300][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:49.302][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.304][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.305][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.307][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:49.309][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-12-19 23:27:49.311][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:49.316][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:49.322][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:49.327][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-12-19 23:27:49.328][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:49.329][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:49.331][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:49.341][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:49.343][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:49.345][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:49.347][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:49.350][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:49.356][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:49.361][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:49.362][private$selectFields]
biodb.TRACE[2024-12-19 23:27:49.364][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-12-19 23:27:49.365][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-12-19 23:27:49.366][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:49.367][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.369][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.370][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.372][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:49.374][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.376][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.378][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.380][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:49.382][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:49.384][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:49.386][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.388][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.390][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.392][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:49.394][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-12-19 23:27:49.396][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:49.402][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:49.408][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:49.414][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2024-12-19 23:27:49.415][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-12-19 23:27:49.417][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-12-19 23:27:49.447][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-12-19 23:27:49.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-12-19 23:27:49.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-12-19 23:27:49.463][biodb::testThat]
biodb.INFO [2024-12-19 23:27:49.464][biodb::testThat] Running test function test_annotateMzValues_input_dataframe_untouched (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2024-12-19 23:27:49.465][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-12-19 23:27:49.467][biodb::testThat]
biodb.TRACE[2024-12-19 23:27:49.471][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-12-19 23:27:49.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-12-19 23:27:49.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:49.476][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:49.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:49.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:49.484][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:49.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:49.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:49.492][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:49.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:49.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:49.500][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:49.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:49.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:49.515][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:49.517][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:49.519][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:49.529][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:49.531][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:49.533][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:49.535][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:27:49.540][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-12-19 23:27:49.546][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-12-19 23:27:49.548][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2024-12-19 23:27:49.551][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-19 23:27:49.555][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2024-12-19 23:27:49.559][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:49.561][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:49.562][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:49.576][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:49.577][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:49.578][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:49.579][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:49.581][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:49.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:49.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:49.586][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:49.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:49.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:49.591][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:49.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:49.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:49.597][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-12-19 23:27:49.601][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-12-19 23:27:49.602][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2024-12-19 23:27:49.604][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-19 23:27:49.606][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2024-12-19 23:27:49.609][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:49.610][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:49.611][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:49.622][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:49.623][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:49.624][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:49.626][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:49.627][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:49.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:49.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:49.633][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:49.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:49.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:49.640][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:49.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:49.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:49.647][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:49.648][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:49.649][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:49.656][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:49.658][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:49.659][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:49.660][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:49.661][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:49.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:49.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:49.678][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:49.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:49.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:49.686][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:49.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:49.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:49.694][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-12-19 23:27:49.697][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:49.699][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:49.700][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:49.711][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:49.713][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:49.715][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:49.717][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:49.719][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:49.727][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:49.735][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:49.737][private$selectFields]
biodb.TRACE[2024-12-19 23:27:49.739][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-12-19 23:27:49.740][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-12-19 23:27:49.742][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:49.744][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.746][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.748][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.750][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:49.751][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.753][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.754][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.755][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:49.756][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:49.757][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:49.759][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.760][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.761][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.762][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:49.763][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-12-19 23:27:49.765][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:49.769][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:49.776][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:49.782][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2024-12-19 23:27:49.783][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:49.784][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:49.785][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:49.794][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:49.796][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:49.798][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:49.800][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:49.802][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:49.810][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:49.818][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:49.820][private$selectFields]
biodb.TRACE[2024-12-19 23:27:49.822][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-12-19 23:27:49.824][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-12-19 23:27:49.825][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:49.827][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.830][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.831][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.833][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:49.835][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.838][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.839][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.841][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:49.843][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:49.845][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:49.847][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.849][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.851][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.853][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:49.855][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-12-19 23:27:49.857][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:49.865][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:49.875][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:49.884][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-12-19 23:27:49.887][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:49.889][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:49.891][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:49.902][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:49.904][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:49.906][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:49.908][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:49.910][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:49.919][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:49.927][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:49.928][private$selectFields]
biodb.TRACE[2024-12-19 23:27:49.930][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-12-19 23:27:49.932][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-12-19 23:27:49.934][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:49.936][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.938][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.940][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.942][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:49.944][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.947][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.949][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.951][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:49.953][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:49.955][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:49.957][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.959][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.961][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.963][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:49.965][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-12-19 23:27:49.967][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:49.975][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:49.981][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:49.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:49.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:49.987][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2024-12-19 23:27:49.988][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-12-19 23:27:49.990][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-12-19 23:27:50.026][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:50.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:50.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:50.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:50.032][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:50.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:50.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:50.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:50.038][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:50.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:50.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:50.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:50.045][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:50.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:50.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:50.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:50.054][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:50.055][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:50.057][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:50.064][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:50.065][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:50.066][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:50.067][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:27:50.071][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-12-19 23:27:50.074][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-12-19 23:27:50.076][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2024-12-19 23:27:50.078][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-19 23:27:50.080][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2024-12-19 23:27:50.083][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-12-19 23:27:50.087][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-12-19 23:27:50.089][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2024-12-19 23:27:50.091][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-19 23:27:50.093][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2024-12-19 23:27:50.096][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:50.097][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:50.099][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:50.110][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:50.112][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:50.114][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:50.116][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:50.118][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:50.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:50.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:50.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:50.126][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:50.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:50.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:50.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:50.134][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:50.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:50.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:50.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:50.141][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:50.143][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:50.145][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:50.156][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:50.158][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:50.160][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:50.161][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:50.164][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:50.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:50.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:50.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:50.172][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:50.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:50.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:50.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:50.179][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:50.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:50.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:50.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:50.187][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:50.189][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:50.190][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:50.207][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:50.209][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:50.211][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:50.213][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:50.215][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:50.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:50.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:50.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:50.223][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:50.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:50.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:50.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:50.231][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:50.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:50.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:50.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:50.239][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-12-19 23:27:50.242][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:50.243][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:50.245][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:50.256][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:50.258][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:50.259][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:50.260][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:50.261][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:50.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:50.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:50.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:50.266][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:50.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:50.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:50.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:50.271][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:50.272][private$selectFields]
biodb.TRACE[2024-12-19 23:27:50.274][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-12-19 23:27:50.275][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-12-19 23:27:50.276][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:50.277][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:50.278][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:50.280][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:50.281][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:50.282][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:50.283][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:50.285][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:50.286][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:50.287][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:50.289][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:50.291][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:50.293][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:50.295][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:50.296][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:50.297][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-12-19 23:27:50.298][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:50.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:50.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:50.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:50.303][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:50.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:50.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:50.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:50.315][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:50.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:50.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:50.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:50.320][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2024-12-19 23:27:50.321][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:50.323][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:50.324][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:50.331][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:50.332][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:50.333][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:50.334][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:50.335][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:50.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:50.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:50.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:50.340][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:50.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:50.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:50.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:50.345][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:50.346][private$selectFields]
biodb.TRACE[2024-12-19 23:27:50.347][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-12-19 23:27:50.348][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-12-19 23:27:50.349][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:50.351][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:50.352][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:50.353][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:50.354][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:50.355][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:50.357][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:50.358][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:50.359][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:50.360][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:50.361][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:50.362][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:50.364][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:50.365][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:50.366][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:50.367][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-12-19 23:27:50.368][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:50.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:50.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:50.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:50.373][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:50.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:50.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:50.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:50.378][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:50.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:50.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:50.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:50.383][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-12-19 23:27:50.384][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:50.385][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:50.386][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:50.393][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:50.395][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:50.396][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:50.397][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:50.398][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:50.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:50.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:50.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:50.403][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:50.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:50.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:50.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:50.408][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:50.409][private$selectFields]
biodb.TRACE[2024-12-19 23:27:50.410][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-12-19 23:27:50.411][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-12-19 23:27:50.412][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:50.414][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:50.415][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:50.416][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:50.417][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:50.418][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:50.420][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:50.421][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:50.422][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:50.423][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:50.424][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-12-19 23:27:50.425][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:50.427][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:50.428][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:50.429][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:50.430][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-12-19 23:27:50.431][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:50.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:50.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:50.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:50.436][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:50.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:50.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:50.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:50.441][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:50.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:50.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:50.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:50.448][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2024-12-19 23:27:50.450][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-12-19 23:27:50.452][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-12-19 23:27:50.479][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-12-19 23:27:50.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-12-19 23:27:50.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:50.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-12-19 23:27:50.489][biodb::testThat]
biodb.INFO [2024-12-19 23:27:50.491][biodb::testThat] Running test function test.wrong.entry (" Wrong entry gives NULL ").
biodb.INFO [2024-12-19 23:27:50.492][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-12-19 23:27:50.493][biodb::testThat]
biodb.DEBUG[2024-12-19 23:27:50.495][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2024-12-19 23:27:50.497][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-12-19 23:27:50.498][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2024-12-19 23:27:50.500][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-12-19 23:27:50.502][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-12-19 23:27:50.503][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-12-19 23:27:50.505][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-12-19 23:27:50.507][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-12-19 23:27:50.509][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-12-19 23:27:50.513][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:50.515][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:50.517][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:50.526][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:50.527][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:50.529][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:50.530][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:27:50.531][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGA".
biodb.DEBUG[2024-12-19 23:27:50.535][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-12-19 23:27:50.536][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-12-19 23:27:50.539][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGA".
biodb.TRACE[2024-12-19 23:27:50.927][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGA).
biodb.DEBUG[2024-12-19 23:27:51.241][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-12-19 23:27:51.243][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b5b4e4941cdc7bc8ff5e29f921c1e9db.content"
biodb.TRACE[2024-12-19 23:27:51.248][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b5b4e4941cdc7bc8ff5e29f921c1e9db.request"
biodb.TRACE[2024-12-19 23:27:51.251][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml"
biodb.DEBUG[2024-12-19 23:27:51.253][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-12-19 23:27:51.255][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-12-19 23:27:51.256][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-12-19 23:27:51.258][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:51.259][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:51.260][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:54.660][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:54.662][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:54.664][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:54.666][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:27:54.671][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:54.673][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:54.675][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:54.677][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:54.679][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:54.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:54.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:54.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:54.688][ef$get] Asked field names are: charge.
biodb.TRACE[2024-12-19 23:27:54.690][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-19 23:27:54.692][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:54.694][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:54.696][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-19 23:27:54.698][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-19 23:27:54.700][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:54.702][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:54.705][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-19 23:27:54.707][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-19 23:27:54.709][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:54.711][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:54.713][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-19 23:27:54.715][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-19 23:27:54.717][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:54.719][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:54.722][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:27:54.724][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:27:54.726][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:54.728][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:54.730][ef$get] Asked field names are: mass.
biodb.TRACE[2024-12-19 23:27:54.732][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:27:54.734][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:54.736][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:54.739][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:54.741][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:27:54.742][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:54.743][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:54.745][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:27:54.746][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:27:54.747][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:54.748][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:54.750][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-19 23:27:54.751][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-19 23:27:54.752][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:54.753][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:54.755][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-19 23:27:54.756][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-19 23:27:54.757][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:54.758][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:54.760][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:54.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:54.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:54.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:54.764][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:54.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:54.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:54.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:54.771][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:54.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:54.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:54.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:54.779][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:27:54.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:27:54.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:54.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:54.788][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:54.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:54.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:54.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:54.796][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:54.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:54.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:54.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:54.804][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:54.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:54.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:54.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:54.813][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:54.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:54.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:54.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:54.821][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:54.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:54.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:54.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:27:54.829][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:27:54.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:27:54.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:27:54.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:27:54.837][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2024-12-19 23:27:54.839][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2024-12-19 23:27:54.854][biodb::testThat]
biodb.INFO [2024-12-19 23:27:54.855][biodb::testThat] Running test function test.wrong.entry.among.good.ones (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2024-12-19 23:27:54.856][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-12-19 23:27:54.858][biodb::testThat]
biodb.DEBUG[2024-12-19 23:27:54.923][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2024-12-19 23:27:54.925][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2024-12-19 23:27:54.928][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
biodb.TRACE[2024-12-19 23:27:54.931][cch$loadFileContent] Trying to load 3 files from cache: [3]: "WRONGB, 2528, 7799".
biodb.TRACE[2024-12-19 23:27:54.934][cch$loadFileContent] file.exist = [3]: "FALSE, FALSE, FALSE".
biodb.TRACE[2024-12-19 23:27:54.937][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-12-19 23:27:54.939][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-12-19 23:27:54.941][conn$getEntryContent] 3 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-12-19 23:27:54.944][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-12-19 23:27:54.946][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-12-19 23:27:54.953][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:54.955][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:54.957][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:54.968][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:54.970][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:54.972][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:54.973][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:27:54.976][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGB".
biodb.DEBUG[2024-12-19 23:27:54.981][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-12-19 23:27:54.983][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-12-19 23:27:54.986][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGB".
biodb.TRACE[2024-12-19 23:27:55.304][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGB).
biodb.DEBUG[2024-12-19 23:27:55.630][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-12-19 23:27:55.634][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/32348f2b7cfb460a97c8a8aa145f239f.content"
biodb.TRACE[2024-12-19 23:27:55.640][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/32348f2b7cfb460a97c8a8aa145f239f.request"
biodb.DEBUG[2024-12-19 23:27:55.644][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:55.645][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:55.647][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:27:55.669][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:27:55.671][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:27:55.673][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:27:55.675][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:27:55.678][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
biodb.DEBUG[2024-12-19 23:27:55.681][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-12-19 23:27:55.683][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-12-19 23:27:55.685][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
biodb.TRACE[2024-12-19 23:27:56.009][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
biodb.DEBUG[2024-12-19 23:27:56.321][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-12-19 23:27:56.324][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65267cab26ad2d71ed08b12751f9bef2.content"
biodb.TRACE[2024-12-19 23:27:56.330][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65267cab26ad2d71ed08b12751f9bef2.request"
biodb.DEBUG[2024-12-19 23:27:56.332][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:27:56.333][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:27:56.335][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:06.805][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:06.807][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:06.808][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:06.810][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.DEBUG[2024-12-19 23:28:06.812][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
biodb.DEBUG[2024-12-19 23:28:06.818][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-12-19 23:28:06.820][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-12-19 23:28:06.823][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
biodb.TRACE[2024-12-19 23:28:07.163][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
biodb.DEBUG[2024-12-19 23:28:07.480][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-12-19 23:28:07.485][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/07eb1d5438367a7b1616709944d88b07.content"
biodb.TRACE[2024-12-19 23:28:07.492][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/07eb1d5438367a7b1616709944d88b07.request"
biodb.TRACE[2024-12-19 23:28:07.497][private$doSaveContentToFile] Saving to cache [3]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml, C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml, C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml"
biodb.DEBUG[2024-12-19 23:28:07.502][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-12-19 23:28:07.505][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2024-12-19 23:28:07.508][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2024-12-19 23:28:07.511][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:28:07.512][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:07.514][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:07.525][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:07.528][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:07.529][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:07.531][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:28:07.536][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:28:07.538][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:28:07.540][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:07.542][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:07.544][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:28:07.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:28:07.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:07.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:07.553][ef$get] Asked field names are: charge.
biodb.TRACE[2024-12-19 23:28:07.555][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-19 23:28:07.557][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:07.559][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:07.561][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-19 23:28:07.563][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-19 23:28:07.565][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:07.567][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:07.570][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-19 23:28:07.572][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-19 23:28:07.574][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:07.576][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:07.578][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-19 23:28:07.580][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-19 23:28:07.582][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:07.584][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:07.587][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:28:07.589][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:28:07.591][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:07.592][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:07.595][ef$get] Asked field names are: mass.
biodb.TRACE[2024-12-19 23:28:07.597][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:28:07.599][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:07.601][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:07.603][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:28:07.605][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:28:07.607][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:07.609][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:07.611][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:28:07.614][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:28:07.615][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:07.617][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:07.620][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-19 23:28:07.622][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-19 23:28:07.624][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:07.626][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:07.629][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-19 23:28:07.631][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-19 23:28:07.633][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:07.635][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:07.637][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:28:07.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:28:07.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:07.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:07.645][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:28:07.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:28:07.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:07.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:07.653][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:28:07.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:28:07.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:07.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:07.661][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:28:07.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:28:07.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:07.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:07.669][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:28:07.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:28:07.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:07.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:07.677][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:28:07.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:28:07.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:07.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:07.685][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:28:07.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:28:07.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:07.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:28:07.693][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:28:07.695][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:07.697][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:07.708][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:07.710][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:07.713][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:07.715][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:28:07.719][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:28:07.721][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:28:07.723][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:07.725][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:07.727][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:28:07.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:28:07.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:07.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:07.735][ef$get] Asked field names are: charge.
biodb.TRACE[2024-12-19 23:28:07.737][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-19 23:28:07.738][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:07.740][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:07.743][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-12-19 23:28:07.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-19 23:28:07.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:07.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:07.751][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-19 23:28:07.753][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-19 23:28:07.755][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:07.757][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:07.760][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-19 23:28:07.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-19 23:28:07.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:07.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:07.768][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-19 23:28:07.770][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-19 23:28:07.771][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:07.772][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:07.775][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-19 23:28:07.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-19 23:28:07.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:07.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:07.783][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-19 23:28:07.785][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-19 23:28:07.787][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:07.789][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:07.792][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-19 23:28:07.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-19 23:28:07.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:07.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:07.800][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:28:07.802][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:28:07.804][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:07.805][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:07.808][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:28:07.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:28:07.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:07.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:07.816][ef$get] Asked field names are: mass.
biodb.TRACE[2024-12-19 23:28:07.818][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:28:07.820][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:07.822][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:07.825][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-12-19 23:28:07.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:28:07.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:07.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:07.834][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:28:07.836][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:28:07.838][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:07.840][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:07.842][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:28:07.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:28:07.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:07.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:07.851][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:28:07.853][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:28:07.855][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:07.857][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:07.859][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:28:07.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:28:07.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:07.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:07.868][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-19 23:28:07.870][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-19 23:28:07.872][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:07.874][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:07.876][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-19 23:28:07.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-19 23:28:07.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:07.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:07.885][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-19 23:28:07.887][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-19 23:28:07.889][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:07.891][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:07.893][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-19 23:28:07.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-19 23:28:07.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:07.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:07.902][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:28:07.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:28:07.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:07.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:07.910][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:28:07.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:28:07.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:07.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:07.915][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:28:07.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:28:07.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:07.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:07.920][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:28:07.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:28:07.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:07.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:07.925][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:28:07.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:28:07.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:07.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:07.931][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:28:07.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:28:07.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:07.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:07.939][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:28:07.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:28:07.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:07.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:28:07.945][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:28:07.946][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:07.949][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:07.958][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:07.960][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:07.961][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:07.962][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:28:07.966][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:28:07.967][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:28:07.969][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:07.970][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:07.973][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:28:07.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:28:07.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:07.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:07.982][ef$get] Asked field names are: charge.
biodb.TRACE[2024-12-19 23:28:07.984][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-19 23:28:07.985][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:07.986][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:07.988][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-12-19 23:28:07.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-19 23:28:07.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:07.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:07.994][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-19 23:28:07.995][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-19 23:28:07.997][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:07.998][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:08.000][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-19 23:28:08.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-19 23:28:08.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:08.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:08.005][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-19 23:28:08.006][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-19 23:28:08.007][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:08.009][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:08.011][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-19 23:28:08.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-19 23:28:08.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:08.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:08.019][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-19 23:28:08.021][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-19 23:28:08.023][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:08.024][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:08.026][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-19 23:28:08.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-19 23:28:08.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:08.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:08.033][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:28:08.036][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:28:08.037][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:08.039][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:08.041][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:28:08.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:28:08.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:08.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:08.047][ef$get] Asked field names are: mass.
biodb.TRACE[2024-12-19 23:28:08.048][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:28:08.049][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:08.051][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:08.052][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-12-19 23:28:08.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:28:08.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:08.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:08.057][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:28:08.059][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:28:08.060][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:08.062][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:08.070][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:28:08.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:28:08.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:08.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:08.079][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:28:08.081][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:28:08.082][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:08.083][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:08.085][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:28:08.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:28:08.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:08.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:08.091][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-19 23:28:08.092][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-19 23:28:08.094][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:08.095][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:08.097][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-19 23:28:08.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-19 23:28:08.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:08.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:08.103][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-19 23:28:08.104][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-19 23:28:08.105][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:08.107][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:08.109][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-19 23:28:08.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-19 23:28:08.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:08.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:08.116][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:28:08.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:28:08.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:08.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:08.122][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:28:08.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:28:08.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:08.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:08.127][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:28:08.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:28:08.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:08.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:08.132][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:28:08.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:28:08.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:08.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:08.137][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:28:08.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:28:08.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:08.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:08.143][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:28:08.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:28:08.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:08.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:08.150][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:28:08.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:28:08.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:08.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:08.158][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:28:08.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:28:08.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:08.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:08.163][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:28:08.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:28:08.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:08.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:08.170][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:28:08.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:28:08.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:08.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:08.176][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:28:08.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:28:08.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:08.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:08.181][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:28:08.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:28:08.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:08.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:08.186][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:28:08.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:28:08.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:08.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:08.191][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:28:08.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:28:08.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:08.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:08.196][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:28:08.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:28:08.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:08.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:08.201][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:28:08.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:28:08.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:08.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:28:08.206][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2024-12-19 23:28:08.207][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2024-12-19 23:28:08.208][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2024-12-19 23:28:08.228][biodb::testThat]
biodb.INFO [2024-12-19 23:28:08.230][biodb::testThat] Running test function test.peak.table (" The peak table is correct. ").
biodb.INFO [2024-12-19 23:28:08.231][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-12-19 23:28:08.232][biodb::testThat]
biodb.INFO [2024-12-19 23:28:08.261][biodb::testThat]
biodb.INFO [2024-12-19 23:28:08.262][biodb::testThat] Running test function test.nb.entries (" Nb entries is positive. ").
biodb.INFO [2024-12-19 23:28:08.264][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-12-19 23:28:08.265][biodb::testThat]
biodb.INFO [2024-12-19 23:28:08.277][biodb::testThat]
biodb.INFO [2024-12-19 23:28:08.279][biodb::testThat] Running test function test.entry.ids (" We can get a list of entry ids. ").
biodb.INFO [2024-12-19 23:28:08.280][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-12-19 23:28:08.281][biodb::testThat]
biodb.DEBUG[2024-12-19 23:28:08.284][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1*&searchCategory=CHEBI ID&maximumResults=100&starsCategory=ALL".
biodb.DEBUG[2024-12-19 23:28:08.288][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-12-19 23:28:08.289][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-12-19 23:28:08.291][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1%2A&searchCategory=CHEBI%20ID&maximumResults=100&starsCategory=ALL".
biodb.TRACE[2024-12-19 23:28:08.808][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1%2A&searchCategory=CHEBI%20ID&maximumResults=100&starsCategory=ALL).
biodb.DEBUG[2024-12-19 23:28:09.204][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-12-19 23:28:09.207][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aed2cd6d5d221333c0a30a9f8dbc41b4.content"
biodb.TRACE[2024-12-19 23:28:09.212][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aed2cd6d5d221333c0a30a9f8dbc41b4.request"
biodb.TRACE[2024-12-19 23:28:09.228][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:28:09.230][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:28:09.231][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:09.232][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:09.234][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:28:09.235][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:28:09.236][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:09.237][ef$get] fields variable is a list.
biodb.INFO [2024-12-19 23:28:09.239][biodb::testThat]
biodb.INFO [2024-12-19 23:28:09.240][biodb::testThat] Running test function test.annotateMzValues (" annotateMzValues() works correctly. ").
biodb.INFO [2024-12-19 23:28:09.242][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-12-19 23:28:09.243][biodb::testThat]
biodb.ERROR[2024-12-19 23:28:09.259][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2024-12-19 23:28:09.275][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2024-12-19 23:28:09.290][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-12-19 23:28:09.292][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2024-12-19 23:28:09.293][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2024-12-19 23:28:09.294][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-12-19 23:28:09.295][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:09.296][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:09.297][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:09.298][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:09.299][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:09.300][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.INFO [2024-12-19 23:28:09.311][biodb::testContext]
biodb.INFO [2024-12-19 23:28:09.312][biodb::testContext] ********************************************************************************
biodb.INFO [2024-12-19 23:28:09.314][biodb::testContext] Test context - Test conversions
biodb.INFO [2024-12-19 23:28:09.315][biodb::testContext] ********************************************************************************
biodb.INFO [2024-12-19 23:28:09.316][biodb::testContext]
biodb.INFO [2024-12-19 23:28:09.319][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2024-12-19 23:28:09.321][self$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.20-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2024-12-19 23:28:09.326][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-12-19 23:28:09.327][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-12-19 23:28:09.329][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-12-19 23:28:09.330][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:09.331][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:09.332][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:09.333][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-12-19 23:28:09.334][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-12-19 23:28:09.335][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:09.336][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:09.337][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:09.339][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-12-19 23:28:09.340][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-12-19 23:28:09.341][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:09.342][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:09.343][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:09.344][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-12-19 23:28:09.346][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-12-19 23:28:09.347][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-12-19 23:28:09.348][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:09.349][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:09.350][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:09.351][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-12-19 23:28:09.352][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-12-19 23:28:09.354][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-12-19 23:28:09.355][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:09.356][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:09.357][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:09.358][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-12-19 23:28:09.359][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-12-19 23:28:09.360][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:09.361][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:09.362][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:09.364][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-12-19 23:28:09.365][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-12-19 23:28:09.366][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-12-19 23:28:09.367][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:09.368][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:09.369][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:09.370][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-12-19 23:28:09.372][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-12-19 23:28:09.373][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:09.374][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:09.375][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.DEBUG[2024-12-19 23:28:09.376][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-12-19 23:28:09.377][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-12-19 23:28:09.378][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-12-19 23:28:09.379][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:09.380][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:09.381][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:09.383][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-12-19 23:28:09.384][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-12-19 23:28:09.385][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-12-19 23:28:09.386][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-12-19 23:28:09.387][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-12-19 23:28:09.389][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-12-19 23:28:09.390][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:09.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:09.392][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[2024-12-19 23:28:09.393][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-12-19 23:28:09.394][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-12-19 23:28:09.395][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:09.396][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:09.398][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:09.399][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-12-19 23:28:09.400][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-12-19 23:28:09.401][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:09.402][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:09.403][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:09.404][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-12-19 23:28:09.406][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-12-19 23:28:09.407][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:09.408][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:09.409][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:09.410][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-12-19 23:28:09.411][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-12-19 23:28:09.412][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:09.414][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:09.415][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:09.416][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-12-19 23:28:09.417][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-12-19 23:28:09.418][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:09.419][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:09.420][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:09.422][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-12-19 23:28:09.423][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-12-19 23:28:09.426][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-12-19 23:28:09.435][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:09.437][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:09.438][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:09.439][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-12-19 23:28:09.440][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-12-19 23:28:09.441][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-12-19 23:28:09.442][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:09.444][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:09.445][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:09.446][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-12-19 23:28:09.448][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-12-19 23:28:09.449][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-12-19 23:28:09.450][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-12-19 23:28:09.451][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-12-19 23:28:09.453][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-12-19 23:28:09.454][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-12-19 23:28:09.455][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-12-19 23:28:09.456][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-12-19 23:28:09.457][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-12-19 23:28:09.459][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-12-19 23:28:09.460][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-12-19 23:28:09.461][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-12-19 23:28:09.462][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-12-19 23:28:09.463][self$setPropertyValue]
biodb.DEBUG[2024-12-19 23:28:09.464][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-12-19 23:28:09.466][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-12-19 23:28:09.466][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-12-19 23:28:09.466][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-12-19 23:28:09.466][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-12-19 23:28:09.466][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-12-19 23:28:09.467][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-12-19 23:28:09.468][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-19 23:28:09.469][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-19 23:28:09.470][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-12-19 23:28:09.472][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-19 23:28:09.473][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-19 23:28:09.474][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-12-19 23:28:09.475][self$setPropertyValue]
biodb.DEBUG[2024-12-19 23:28:09.476][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-12-19 23:28:09.477][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-12-19 23:28:09.478][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-12-19 23:28:09.479][self$setPropertyValue]
biodb.DEBUG[2024-12-19 23:28:09.481][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-12-19 23:28:09.483][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-12-19 23:28:09.484][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-12-19 23:28:09.485][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-12-19 23:28:09.486][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-12-19 23:28:09.487][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-12-19 23:28:09.489][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-12-19 23:28:09.490][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-12-19 23:28:09.491][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-12-19 23:28:09.492][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-12-19 23:28:09.493][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-12-19 23:28:09.494][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-12-19 23:28:09.496][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-12-19 23:28:09.497][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-12-19 23:28:09.498][self$setPropertyValue]
biodb.DEBUG[2024-12-19 23:28:09.499][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-12-19 23:28:09.500][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-12-19 23:28:09.500][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-12-19 23:28:09.500][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-12-19 23:28:09.500][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-12-19 23:28:09.500][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-12-19 23:28:09.501][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-12-19 23:28:09.503][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-19 23:28:09.504][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-19 23:28:09.505][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-12-19 23:28:09.506][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-19 23:28:09.507][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-19 23:28:09.508][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-12-19 23:28:09.509][self$setPropertyValue]
biodb.DEBUG[2024-12-19 23:28:09.510][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-12-19 23:28:09.511][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-12-19 23:28:09.513][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-12-19 23:28:09.514][self$setPropertyValue]
biodb.DEBUG[2024-12-19 23:28:09.515][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-12-19 23:28:09.517][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-12-19 23:28:09.518][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-12-19 23:28:09.519][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-12-19 23:28:09.520][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-12-19 23:28:09.522][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-12-19 23:28:09.523][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-12-19 23:28:09.524][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-12-19 23:28:09.525][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-12-19 23:28:09.526][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-12-19 23:28:09.528][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-12-19 23:28:09.529][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-12-19 23:28:09.530][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-12-19 23:28:09.531][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-12-19 23:28:09.532][self$setPropertyValue]
biodb.DEBUG[2024-12-19 23:28:09.533][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-12-19 23:28:09.535][self$setPropertyValue]
biodb.DEBUG[2024-12-19 23:28:09.536][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-12-19 23:28:09.537][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-19 23:28:09.538][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-19 23:28:09.539][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-12-19 23:28:09.540][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-19 23:28:09.541][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-19 23:28:09.542][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-12-19 23:28:09.544][self$setPropertyValue]
biodb.DEBUG[2024-12-19 23:28:09.545][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-12-19 23:28:09.546][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-12-19 23:28:09.547][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-12-19 23:28:09.548][self$setPropertyValue]
biodb.DEBUG[2024-12-19 23:28:09.550][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-12-19 23:28:09.552][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-12-19 23:28:09.553][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-12-19 23:28:09.554][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-12-19 23:28:09.555][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-12-19 23:28:09.556][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-12-19 23:28:09.558][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-12-19 23:28:09.559][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-12-19 23:28:09.560][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-12-19 23:28:09.561][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-12-19 23:28:09.562][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-12-19 23:28:09.564][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-12-19 23:28:09.565][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-12-19 23:28:09.566][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-12-19 23:28:09.567][self$setPropertyValue]
biodb.DEBUG[2024-12-19 23:28:09.568][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-12-19 23:28:09.570][self$setPropertyValue]
biodb.DEBUG[2024-12-19 23:28:09.571][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-12-19 23:28:09.572][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-19 23:28:09.573][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-19 23:28:09.574][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-12-19 23:28:09.575][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-19 23:28:09.576][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-19 23:28:09.577][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-12-19 23:28:09.579][self$setPropertyValue]
biodb.DEBUG[2024-12-19 23:28:09.580][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-12-19 23:28:09.581][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-12-19 23:28:09.582][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-12-19 23:28:09.583][self$setPropertyValue]
biodb.DEBUG[2024-12-19 23:28:09.585][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-12-19 23:28:09.586][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:09.587][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:09.588][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:09.589][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:09.590][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:09.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:09.592][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[2024-12-19 23:28:09.593][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:09.594][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:09.595][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:09.596][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:09.598][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:09.599][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:09.600][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:09.601][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:09.602][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:09.603][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[2024-12-19 23:28:09.604][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:09.605][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:09.606][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:09.607][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:09.608][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:09.609][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:09.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:09.611][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:09.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:09.614][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[2024-12-19 23:28:09.615][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:09.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:09.617][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:09.618][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:09.619][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:09.620][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:09.621][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:09.622][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:09.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:09.625][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:09.626][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:09.627][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:09.628][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:09.629][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:09.630][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:09.631][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:09.632][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:09.633][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:09.634][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:09.635][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:09.636][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:09.637][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:09.638][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:09.639][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:09.641][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:09.642][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:09.643][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:09.644][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:09.645][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:09.646][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:09.647][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:09.648][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:09.649][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:09.650][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:09.651][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:09.652][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:09.653][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:09.654][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:09.655][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:09.657][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:09.658][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:09.659][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:09.660][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:09.661][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:09.662][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[2024-12-19 23:28:09.663][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:09.664][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:09.665][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:09.666][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:09.667][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:09.669][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:09.670][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:09.671][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:09.672][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:09.673][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:09.674][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:09.675][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:09.676][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:09.677][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:09.678][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:09.679][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-12-19 23:28:09.681][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-12-19 23:28:09.683][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-12-19 23:28:09.684][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-12-19 23:28:09.686][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-12-19 23:28:09.687][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-12-19 23:28:09.689][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-12-19 23:28:09.690][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-12-19 23:28:09.692][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-12-19 23:28:09.693][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-12-19 23:28:09.695][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-12-19 23:28:09.697][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-12-19 23:28:09.698][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-12-19 23:28:09.700][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-12-19 23:28:09.701][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-12-19 23:28:09.703][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-12-19 23:28:09.704][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-12-19 23:28:09.706][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-12-19 23:28:09.707][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-12-19 23:28:09.709][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-12-19 23:28:09.711][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-12-19 23:28:09.712][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-12-19 23:28:09.714][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-12-19 23:28:09.715][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-12-19 23:28:09.717][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-12-19 23:28:09.718][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-12-19 23:28:09.720][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-12-19 23:28:09.721][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-12-19 23:28:09.723][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-12-19 23:28:09.725][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-12-19 23:28:09.726][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-12-19 23:28:09.728][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-12-19 23:28:09.729][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-12-19 23:28:09.731][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-12-19 23:28:09.732][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-12-19 23:28:09.734][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-12-19 23:28:09.736][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-12-19 23:28:09.737][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-12-19 23:28:09.739][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-12-19 23:28:09.740][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-12-19 23:28:09.742][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-12-19 23:28:09.743][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-12-19 23:28:09.745][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-12-19 23:28:09.746][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-12-19 23:28:09.748][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-12-19 23:28:09.750][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-12-19 23:28:09.751][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-12-19 23:28:09.753][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-12-19 23:28:09.754][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-12-19 23:28:09.756][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-12-19 23:28:09.757][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-12-19 23:28:09.759][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-12-19 23:28:09.760][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-12-19 23:28:09.762][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-12-19 23:28:09.763][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-12-19 23:28:09.765][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-12-19 23:28:09.767][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-12-19 23:28:09.768][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-12-19 23:28:09.770][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-12-19 23:28:09.771][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-12-19 23:28:09.773][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-12-19 23:28:09.774][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-12-19 23:28:09.776][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-12-19 23:28:09.778][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-12-19 23:28:09.779][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-12-19 23:28:09.781][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-12-19 23:28:09.782][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-12-19 23:28:09.784][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-12-19 23:28:09.785][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-12-19 23:28:09.787][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-12-19 23:28:09.788][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-12-19 23:28:09.790][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-12-19 23:28:09.792][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-12-19 23:28:09.793][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-12-19 23:28:09.795][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-12-19 23:28:09.796][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-12-19 23:28:09.798][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-12-19 23:28:09.799][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-12-19 23:28:09.801][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-12-19 23:28:09.802][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-12-19 23:28:09.804][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-12-19 23:28:09.806][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-12-19 23:28:09.807][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-12-19 23:28:09.809][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-12-19 23:28:09.811][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2024-12-19 23:28:09.812][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-12-19 23:28:09.813][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:09.814][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:09.816][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:09.817][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[2024-12-19 23:28:09.818][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:09.819][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:09.820][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:09.827][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:09.828][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:09.829][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:09.830][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:09.831][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:09.832][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:09.833][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:09.835][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:09.836][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:09.837][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:09.838][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:09.839][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:09.840][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:09.841][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:09.842][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:09.843][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:09.844][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:09.845][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:09.846][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:09.847][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:09.849][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:09.850][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:09.851][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:09.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:09.853][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:09.854][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:09.855][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:09.856][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:09.857][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:09.858][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:09.859][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:09.860][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:09.861][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:09.862][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:09.864][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:09.865][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:09.866][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:09.867][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:09.868][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.DEBUG[2024-12-19 23:28:09.869][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:09.870][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:09.871][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:09.872][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:09.873][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:09.874][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:09.875][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:09.876][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:09.877][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:09.878][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:09.879][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:09.881][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:09.882][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:09.883][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[2024-12-19 23:28:09.884][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:09.885][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:09.886][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:09.887][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:09.888][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:09.889][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:09.890][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:09.891][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:09.892][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:09.893][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:09.894][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:09.895][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:09.897][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:09.898][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:09.899][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:09.900][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:09.901][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:09.902][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:09.903][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:09.904][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:09.905][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:09.906][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:09.907][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:09.908][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:09.909][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:09.910][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:09.911][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:09.912][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:09.913][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:09.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:09.916][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:09.917][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:09.918][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:09.919][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:09.920][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:09.921][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:09.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:09.923][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:09.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:09.925][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:09.926][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:09.927][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.DEBUG[2024-12-19 23:28:09.928][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:09.929][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:09.930][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:09.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:09.932][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:09.933][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:09.935][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:09.936][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:09.937][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:09.938][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:09.939][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:09.940][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:09.941][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:09.942][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:09.943][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:09.944][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:09.945][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:09.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:09.947][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:09.948][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:09.950][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:09.952][biodb$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.20-bioc/R/library/biodbChebi/definitions.yml".
biodb.DEBUG[2024-12-19 23:28:09.954][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2024-12-19 23:28:09.956][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-12-19 23:28:09.958][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-12-19 23:28:09.959][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-12-19 23:28:09.960][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-12-19 23:28:09.961][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-12-19 23:28:09.962][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-12-19 23:28:09.964][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-12-19 23:28:09.965][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2024-12-19 23:28:09.966][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-12-19 23:28:09.967][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-12-19 23:28:09.968][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-12-19 23:28:09.969][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2024-12-19 23:28:09.971][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-12-19 23:28:09.972][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2024-12-19 23:28:09.972][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2024-12-19 23:28:09.972][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2024-12-19 23:28:09.972][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2024-12-19 23:28:09.972][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2024-12-19 23:28:09.972][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2024-12-19 23:28:09.972][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2024-12-19 23:28:09.972][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2024-12-19 23:28:09.972][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2024-12-19 23:28:09.972][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2024-12-19 23:28:09.972][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2024-12-19 23:28:09.973][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-12-19 23:28:09.975][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-12-19 23:28:09.975][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-12-19 23:28:09.975][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-12-19 23:28:09.976][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-12-19 23:28:09.977][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-19 23:28:09.978][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-19 23:28:09.979][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-12-19 23:28:09.980][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-19 23:28:09.981][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-19 23:28:09.982][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-12-19 23:28:09.984][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-12-19 23:28:09.984][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2024-12-19 23:28:09.985][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-12-19 23:28:09.986][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-12-19 23:28:09.987][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-12-19 23:28:09.988][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2024-12-19 23:28:09.988][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2024-12-19 23:28:09.990][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-12-19 23:28:09.992][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-12-19 23:28:09.993][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2024-12-19 23:28:09.995][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-12-19 23:28:09.997][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-12-19 23:28:09.998][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-12-19 23:28:10.002][super$initialize] Initialize connector chebi.
biodb.DEBUG[2024-12-19 23:28:10.003][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2024-12-19 23:28:10.004][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2024-12-19 23:28:10.006][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2024-12-19 23:28:10.008][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-12-19 23:28:10.009][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-12-19 23:28:10.010][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2024-12-19 23:28:10.011][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2024-12-19 23:28:10.013][biodb::testThat]
biodb.INFO [2024-12-19 23:28:10.014][biodb::testThat] Running test function test_chebi_convCasToChebi (" convCasToChebi() works. ").
biodb.INFO [2024-12-19 23:28:10.016][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-12-19 23:28:10.017][biodb::testThat]
biodb.DEBUG[2024-12-19 23:28:10.023][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2024-12-19 23:28:10.028][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-12-19 23:28:10.030][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-12-19 23:28:10.031][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.TRACE[2024-12-19 23:28:10.318][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl).
biodb.DEBUG[2024-12-19 23:28:10.729][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-12-19 23:28:10.732][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content"
biodb.TRACE[2024-12-19 23:28:10.737][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.request"
biodb.DEBUG[2024-12-19 23:28:10.758][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-12-19 23:28:10.762][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-12-19 23:28:10.763][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-12-19 23:28:10.765][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2024-12-19 23:28:11.071][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2024-12-19 23:28:11.382][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-12-19 23:28:11.385][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content"
biodb.TRACE[2024-12-19 23:28:11.390][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.request"
biodb.DEBUG[2024-12-19 23:28:11.393][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:28:11.394][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:11.395][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:11.402][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:11.403][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:11.404][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:11.406][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[2024-12-19 23:28:11.408][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-12-19 23:28:11.411][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-12-19 23:28:11.413][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-12-19 23:28:11.415][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2024-12-19 23:28:11.731][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2024-12-19 23:28:12.045][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-12-19 23:28:12.049][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content"
biodb.TRACE[2024-12-19 23:28:12.055][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.request"
biodb.DEBUG[2024-12-19 23:28:12.058][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:28:12.059][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:12.061][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:12.068][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:12.069][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:12.070][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:12.071][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:12.087][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:28:12.088][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:12.089][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:12.096][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:12.098][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:12.099][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:12.100][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[2024-12-19 23:28:12.106][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-12-19 23:28:12.111][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-12-19 23:28:12.113][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2024-12-19 23:28:12.114][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-19 23:28:12.138][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2024-12-19 23:28:12.142][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:28:12.143][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:12.145][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:12.156][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:12.157][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:12.159][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:12.161][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:12.164][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-12-19 23:28:12.170][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-12-19 23:28:12.172][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2024-12-19 23:28:12.175][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-19 23:28:12.439][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2024-12-19 23:28:12.442][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:28:12.443][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:12.444][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:12.451][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:12.452][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:12.453][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:12.454][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:12.455][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:28:12.456][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:12.458][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:12.465][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:12.466][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:12.473][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:12.480][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:12.484][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-12-19 23:28:12.488][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-12-19 23:28:12.490][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2024-12-19 23:28:12.492][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-19 23:28:12.494][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2024-12-19 23:28:12.496][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:28:12.497][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:12.498][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:12.508][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:12.510][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:12.512][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:12.514][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:12.518][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-12-19 23:28:12.524][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-12-19 23:28:12.526][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2024-12-19 23:28:12.529][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-19 23:28:12.532][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2024-12-19 23:28:12.536][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:28:12.538][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:12.539][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:12.550][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:12.552][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:12.554][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:12.556][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:12.559][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-12-19 23:28:12.565][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-12-19 23:28:12.567][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-12-19 23:28:12.571][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2024-12-19 23:28:12.884][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2024-12-19 23:28:13.184][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-12-19 23:28:13.188][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70e3912746e7e39b39fbbffe6c90b502.content"
biodb.TRACE[2024-12-19 23:28:13.195][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70e3912746e7e39b39fbbffe6c90b502.request"
biodb.DEBUG[2024-12-19 23:28:13.199][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:28:13.201][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:13.203][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:13.212][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:13.213][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:13.214][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:13.215][FUN] Functions in observer BiodbConfig: [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 [2024-12-19 23:28:13.224][biodb::testThat]
biodb.INFO [2024-12-19 23:28:13.226][biodb::testThat] Running test function test_chebi_convInchiToChebi (" convInchiToChebi() works. ").
biodb.INFO [2024-12-19 23:28:13.227][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-12-19 23:28:13.228][biodb::testThat]
biodb.DEBUG[2024-12-19 23:28:13.232][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI=1S/C15H24/c1-9(2)11-7-8-15(4)12-6-5-10(3)14(15)13(11)12/h5,9,11-14H,6-8H2,1-4H3/t11?,12?,13?,14?,15-/m0/s1&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-12-19 23:28:13.236][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-12-19 23:28:13.238][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-12-19 23:28:13.241][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI%3D1S%2FC15H24%2Fc1-9%282%2911-7-8-15%284%2912-6-5-10%283%2914%2815%2913%2811%2912%2Fh5%2C9%2C11-14H%2C6-8H2%2C1-4H3%2Ft11%3F%2C12%3F%2C13%3F%2C14%3F%2C15-%2Fm0%2Fs1&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2024-12-19 23:28:13.608][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI%3D1S%2FC15H24%2Fc1-9%282%2911-7-8-15%284%2912-6-5-10%283%2914%2815%2913%2811%2912%2Fh5%2C9%2C11-14H%2C6-8H2%2C1-4H3%2Ft11%3F%2C12%3F%2C13%3F%2C14%3F%2C15-%2Fm0%2Fs1&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2024-12-19 23:28:13.924][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-12-19 23:28:13.929][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64007787a4f3864bb479683766386808.content"
biodb.TRACE[2024-12-19 23:28:13.937][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64007787a4f3864bb479683766386808.request"
biodb.DEBUG[2024-12-19 23:28:13.942][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:28:13.944][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:13.946][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:13.957][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:13.959][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:13.961][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:13.963][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:13.970][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-12-19 23:28:13.976][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-12-19 23:28:13.979][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-12-19 23:28:13.982][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2024-12-19 23:28:14.300][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2024-12-19 23:28:14.617][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-12-19 23:28:14.621][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7547b08b3ebd50447d61026ab0af8d63.content"
biodb.TRACE[2024-12-19 23:28:14.628][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7547b08b3ebd50447d61026ab0af8d63.request"
biodb.DEBUG[2024-12-19 23:28:14.633][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:28:14.634][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:14.636][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:14.647][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:14.649][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:14.651][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:14.653][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-12-19 23:28:14.664][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-12-19 23:28:14.667][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2024-12-19 23:28:14.669][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2024-12-19 23:28:14.671][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-12-19 23:28:14.673][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:14.674][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:14.676][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:14.678][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:14.680][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:14.682][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-12-19 23:28:14.689][biodb::testContext]
biodb.INFO [2024-12-19 23:28:14.691][biodb::testContext] ********************************************************************************
biodb.INFO [2024-12-19 23:28:14.693][biodb::testContext] Test context - Test web services
biodb.INFO [2024-12-19 23:28:14.695][biodb::testContext] ********************************************************************************
biodb.INFO [2024-12-19 23:28:14.697][biodb::testContext]
biodb.INFO [2024-12-19 23:28:14.701][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2024-12-19 23:28:14.705][self$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.20-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2024-12-19 23:28:14.714][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-12-19 23:28:14.716][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-12-19 23:28:14.718][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-12-19 23:28:14.720][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:14.722][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:14.723][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:14.725][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-12-19 23:28:14.727][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-12-19 23:28:14.729][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:14.731][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:14.732][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[2024-12-19 23:28:14.734][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-12-19 23:28:14.736][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-12-19 23:28:14.738][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:14.740][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:14.741][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:14.743][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-12-19 23:28:14.745][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-12-19 23:28:14.747][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-12-19 23:28:14.749][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:14.750][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:14.752][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[2024-12-19 23:28:14.754][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-12-19 23:28:14.756][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-12-19 23:28:14.758][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-12-19 23:28:14.759][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:14.761][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:14.763][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:14.765][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-12-19 23:28:14.767][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-12-19 23:28:14.768][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:14.770][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:14.772][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:14.774][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-12-19 23:28:14.776][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-12-19 23:28:14.778][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-12-19 23:28:14.779][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:14.781][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:14.783][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:14.785][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-12-19 23:28:14.787][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-12-19 23:28:14.788][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:14.790][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:14.792][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[2024-12-19 23:28:14.793][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-12-19 23:28:14.795][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-12-19 23:28:14.797][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-12-19 23:28:14.799][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:14.801][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:14.802][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:14.804][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-12-19 23:28:14.806][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-12-19 23:28:14.808][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-12-19 23:28:14.810][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-12-19 23:28:14.812][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-12-19 23:28:14.814][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-12-19 23:28:14.816][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:14.817][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:14.819][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:14.821][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-12-19 23:28:14.823][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-12-19 23:28:14.825][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:14.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:14.828][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:14.830][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-12-19 23:28:14.832][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-12-19 23:28:14.834][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:14.836][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:14.837][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:14.839][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-12-19 23:28:14.841][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-12-19 23:28:14.843][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:14.844][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:14.846][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:14.848][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-12-19 23:28:14.850][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-12-19 23:28:14.852][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:14.853][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:14.855][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:14.857][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-12-19 23:28:14.859][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-12-19 23:28:14.861][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:14.862][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:14.864][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:14.866][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-12-19 23:28:14.868][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-12-19 23:28:14.873][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-12-19 23:28:14.875][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:14.877][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:14.879][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:14.880][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-12-19 23:28:14.881][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-12-19 23:28:14.883][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-12-19 23:28:14.884][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:14.885][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:14.886][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:14.887][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-12-19 23:28:14.889][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-12-19 23:28:14.890][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-12-19 23:28:14.892][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-12-19 23:28:14.893][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-12-19 23:28:14.894][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-12-19 23:28:14.895][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-12-19 23:28:14.897][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-12-19 23:28:14.898][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-12-19 23:28:14.899][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-12-19 23:28:14.900][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-12-19 23:28:14.901][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-12-19 23:28:14.903][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-12-19 23:28:14.904][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-12-19 23:28:14.905][self$setPropertyValue]
biodb.DEBUG[2024-12-19 23:28:14.906][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-12-19 23:28:14.907][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-12-19 23:28:14.907][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-12-19 23:28:14.907][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-12-19 23:28:14.907][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-12-19 23:28:14.907][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-12-19 23:28:14.909][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-12-19 23:28:14.910][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-19 23:28:14.911][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-19 23:28:14.912][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-12-19 23:28:14.913][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-19 23:28:14.914][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-19 23:28:14.915][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-12-19 23:28:14.917][self$setPropertyValue]
biodb.DEBUG[2024-12-19 23:28:14.918][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-12-19 23:28:14.919][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-12-19 23:28:14.920][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-12-19 23:28:14.921][self$setPropertyValue]
biodb.DEBUG[2024-12-19 23:28:14.923][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-12-19 23:28:14.925][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-12-19 23:28:14.926][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-12-19 23:28:14.927][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-12-19 23:28:14.928][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-12-19 23:28:14.930][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-12-19 23:28:14.931][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-12-19 23:28:14.932][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-12-19 23:28:14.933][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-12-19 23:28:14.934][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-12-19 23:28:14.936][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-12-19 23:28:14.937][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-12-19 23:28:14.938][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-12-19 23:28:14.939][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-12-19 23:28:14.940][self$setPropertyValue]
biodb.DEBUG[2024-12-19 23:28:14.942][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-12-19 23:28:14.943][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-12-19 23:28:14.943][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-12-19 23:28:14.943][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-12-19 23:28:14.943][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-12-19 23:28:14.943][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-12-19 23:28:14.944][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-12-19 23:28:14.945][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-19 23:28:14.946][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-19 23:28:14.948][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-12-19 23:28:14.949][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-19 23:28:14.950][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-19 23:28:14.951][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-12-19 23:28:14.952][self$setPropertyValue]
biodb.DEBUG[2024-12-19 23:28:14.953][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-12-19 23:28:14.954][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-12-19 23:28:14.956][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-12-19 23:28:14.957][self$setPropertyValue]
biodb.DEBUG[2024-12-19 23:28:14.959][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-12-19 23:28:14.960][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-12-19 23:28:14.962][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-12-19 23:28:14.963][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-12-19 23:28:14.965][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-12-19 23:28:14.966][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-12-19 23:28:14.968][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-12-19 23:28:14.969][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-12-19 23:28:14.971][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-12-19 23:28:14.973][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-12-19 23:28:14.975][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-12-19 23:28:14.977][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-12-19 23:28:14.979][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-12-19 23:28:14.981][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-12-19 23:28:14.983][self$setPropertyValue]
biodb.DEBUG[2024-12-19 23:28:14.985][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-12-19 23:28:14.987][self$setPropertyValue]
biodb.DEBUG[2024-12-19 23:28:14.989][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-12-19 23:28:14.990][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-19 23:28:14.991][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-19 23:28:14.992][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-12-19 23:28:14.993][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-19 23:28:14.994][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-19 23:28:14.996][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-12-19 23:28:14.997][self$setPropertyValue]
biodb.DEBUG[2024-12-19 23:28:15.004][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-12-19 23:28:15.013][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-12-19 23:28:15.015][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-12-19 23:28:15.017][self$setPropertyValue]
biodb.DEBUG[2024-12-19 23:28:15.019][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-12-19 23:28:15.022][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-12-19 23:28:15.025][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-12-19 23:28:15.027][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-12-19 23:28:15.029][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-12-19 23:28:15.031][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-12-19 23:28:15.032][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-12-19 23:28:15.034][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-12-19 23:28:15.036][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-12-19 23:28:15.037][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-12-19 23:28:15.038][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-12-19 23:28:15.040][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-12-19 23:28:15.041][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-12-19 23:28:15.043][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-12-19 23:28:15.044][self$setPropertyValue]
biodb.DEBUG[2024-12-19 23:28:15.046][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-12-19 23:28:15.047][self$setPropertyValue]
biodb.DEBUG[2024-12-19 23:28:15.048][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-12-19 23:28:15.050][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-19 23:28:15.052][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-19 23:28:15.053][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-12-19 23:28:15.055][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-19 23:28:15.057][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-19 23:28:15.059][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-12-19 23:28:15.061][self$setPropertyValue]
biodb.DEBUG[2024-12-19 23:28:15.063][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-12-19 23:28:15.065][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-12-19 23:28:15.067][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-12-19 23:28:15.069][self$setPropertyValue]
biodb.DEBUG[2024-12-19 23:28:15.071][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-12-19 23:28:15.073][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:15.075][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[2024-12-19 23:28:15.077][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:15.079][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:15.081][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:15.083][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:15.084][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:15.086][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:15.088][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:15.090][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:15.092][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:15.094][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:15.096][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:15.097][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:15.099][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:15.101][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:15.103][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:15.105][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:15.107][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:15.108][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:15.110][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:15.112][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:15.114][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:15.116][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:15.118][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:15.119][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:15.121][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:15.123][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:15.125][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:15.127][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:15.128][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:15.130][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[2024-12-19 23:28:15.132][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:15.134][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:15.136][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:15.138][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:15.140][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:15.141][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:15.143][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:15.145][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:15.147][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:15.149][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:15.150][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:15.152][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:15.154][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:15.156][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:15.158][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:15.160][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:15.161][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:15.163][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:15.165][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:15.167][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:15.169][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:15.170][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:15.172][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:15.174][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:15.176][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:15.178][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:15.179][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:15.181][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:15.183][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:15.185][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:15.187][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:15.189][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:15.190][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:15.192][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:15.194][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:15.196][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:15.198][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:15.200][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:15.201][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:15.203][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:15.205][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:15.207][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:15.209][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:15.210][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:15.211][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:15.212][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:15.213][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:15.215][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:15.216][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:15.217][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:15.218][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:15.219][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:15.220][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:15.221][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:15.222][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:15.223][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-12-19 23:28:15.225][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-12-19 23:28:15.227][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-12-19 23:28:15.228][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-12-19 23:28:15.230][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-12-19 23:28:15.231][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-12-19 23:28:15.233][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-12-19 23:28:15.234][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-12-19 23:28:15.236][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-12-19 23:28:15.238][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-12-19 23:28:15.239][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-12-19 23:28:15.241][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-12-19 23:28:15.242][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-12-19 23:28:15.244][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-12-19 23:28:15.246][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-12-19 23:28:15.247][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-12-19 23:28:15.249][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-12-19 23:28:15.250][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-12-19 23:28:15.252][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-12-19 23:28:15.253][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-12-19 23:28:15.255][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-12-19 23:28:15.257][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-12-19 23:28:15.258][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-12-19 23:28:15.260][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-12-19 23:28:15.261][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-12-19 23:28:15.263][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-12-19 23:28:15.264][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-12-19 23:28:15.266][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-12-19 23:28:15.268][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-12-19 23:28:15.269][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-12-19 23:28:15.271][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-12-19 23:28:15.272][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-12-19 23:28:15.274][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-12-19 23:28:15.276][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-12-19 23:28:15.278][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-12-19 23:28:15.279][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-12-19 23:28:15.282][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-12-19 23:28:15.284][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-12-19 23:28:15.287][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-12-19 23:28:15.289][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-12-19 23:28:15.291][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-12-19 23:28:15.294][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-12-19 23:28:15.297][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-12-19 23:28:15.299][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-12-19 23:28:15.302][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-12-19 23:28:15.304][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-12-19 23:28:15.307][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-12-19 23:28:15.309][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-12-19 23:28:15.312][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-12-19 23:28:15.314][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-12-19 23:28:15.317][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-12-19 23:28:15.320][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-12-19 23:28:15.322][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-12-19 23:28:15.325][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-12-19 23:28:15.327][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-12-19 23:28:15.330][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-12-19 23:28:15.332][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-12-19 23:28:15.335][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-12-19 23:28:15.337][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-12-19 23:28:15.340][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-12-19 23:28:15.342][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-12-19 23:28:15.345][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-12-19 23:28:15.347][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-12-19 23:28:15.350][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-12-19 23:28:15.353][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-12-19 23:28:15.355][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-12-19 23:28:15.358][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-12-19 23:28:15.360][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-12-19 23:28:15.363][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-12-19 23:28:15.365][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-12-19 23:28:15.368][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-12-19 23:28:15.371][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-12-19 23:28:15.373][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-12-19 23:28:15.376][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-12-19 23:28:15.379][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-12-19 23:28:15.382][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-12-19 23:28:15.384][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-12-19 23:28:15.387][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-12-19 23:28:15.390][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-12-19 23:28:15.393][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-12-19 23:28:15.395][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-12-19 23:28:15.398][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-12-19 23:28:15.401][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-12-19 23:28:15.404][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-12-19 23:28:15.408][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2024-12-19 23:28:15.410][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-12-19 23:28:15.411][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:15.413][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:15.415][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:15.417][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:15.419][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:15.420][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:15.422][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:15.424][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:15.426][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:15.427][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:15.429][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:15.431][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:15.433][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:15.435][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:15.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:15.438][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:15.440][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:15.442][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:15.444][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:15.446][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:15.448][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:15.449][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:15.451][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:15.453][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:15.455][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:15.456][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:15.458][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:15.460][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:15.462][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:15.464][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:15.465][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:15.467][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[2024-12-19 23:28:15.469][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:15.471][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:15.472][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:15.474][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:15.476][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:15.478][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:15.479][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:15.481][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:15.483][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:15.485][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:15.486][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:15.488][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:15.490][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:15.491][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:15.493][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:15.495][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:15.497][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:15.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:15.500][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:15.502][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:15.504][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[2024-12-19 23:28:15.505][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:15.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:15.509][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:15.511][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:15.513][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:15.514][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:15.516][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[2024-12-19 23:28:15.518][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:15.520][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:15.522][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:15.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:15.525][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:15.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:15.529][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:15.531][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:15.532][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:15.534][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:15.536][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:15.538][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:15.539][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:15.541][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[2024-12-19 23:28:15.543][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:15.545][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:15.546][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:15.548][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:15.550][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:15.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:15.553][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:15.555][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:15.557][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:15.559][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:15.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:15.562][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:15.564][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:15.566][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:15.567][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:15.569][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:15.571][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:15.573][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:15.575][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:15.576][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:15.578][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:15.580][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:15.582][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:15.583][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:15.585][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:15.587][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:15.589][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:15.590][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[2024-12-19 23:28:15.592][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:15.594][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:15.596][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:15.597][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:15.599][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:15.611][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:15.613][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:15.615][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:15.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:15.618][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:15.620][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:15.622][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:15.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:15.625][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:15.627][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:15.629][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:15.630][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:15.632][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:15.634][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:15.635][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:15.637][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:15.641][biodb$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.20-bioc/R/library/biodbChebi/definitions.yml".
biodb.DEBUG[2024-12-19 23:28:15.645][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2024-12-19 23:28:15.648][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-12-19 23:28:15.650][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-12-19 23:28:15.652][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-12-19 23:28:15.654][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-12-19 23:28:15.656][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-12-19 23:28:15.658][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-12-19 23:28:15.660][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-12-19 23:28:15.662][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2024-12-19 23:28:15.664][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-12-19 23:28:15.666][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-12-19 23:28:15.668][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-12-19 23:28:15.670][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2024-12-19 23:28:15.672][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-12-19 23:28:15.674][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2024-12-19 23:28:15.674][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2024-12-19 23:28:15.674][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2024-12-19 23:28:15.674][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2024-12-19 23:28:15.674][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2024-12-19 23:28:15.674][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2024-12-19 23:28:15.674][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2024-12-19 23:28:15.674][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2024-12-19 23:28:15.674][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2024-12-19 23:28:15.674][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2024-12-19 23:28:15.674][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2024-12-19 23:28:15.676][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-12-19 23:28:15.678][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-12-19 23:28:15.678][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-12-19 23:28:15.678][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-12-19 23:28:15.680][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-12-19 23:28:15.682][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-19 23:28:15.683][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-19 23:28:15.685][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-12-19 23:28:15.687][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-19 23:28:15.689][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-19 23:28:15.690][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-12-19 23:28:15.692][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-12-19 23:28:15.692][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2024-12-19 23:28:15.694][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-12-19 23:28:15.696][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-12-19 23:28:15.698][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-12-19 23:28:15.699][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2024-12-19 23:28:15.699][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2024-12-19 23:28:15.702][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-12-19 23:28:15.705][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-12-19 23:28:15.708][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2024-12-19 23:28:15.710][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-12-19 23:28:15.713][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-12-19 23:28:15.716][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-12-19 23:28:15.721][super$initialize] Initialize connector chebi.
biodb.DEBUG[2024-12-19 23:28:15.723][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2024-12-19 23:28:15.726][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2024-12-19 23:28:15.729][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2024-12-19 23:28:15.731][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-12-19 23:28:15.733][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-12-19 23:28:15.736][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2024-12-19 23:28:15.738][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2024-12-19 23:28:15.741][biodb::testThat]
biodb.INFO [2024-12-19 23:28:15.743][biodb::testThat] Running test function test.chebi.wsGetLiteEntity (" Web service getLiteEntity works fine. ").
biodb.INFO [2024-12-19 23:28:15.745][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-12-19 23:28:15.747][biodb::testThat]
biodb.DEBUG[2024-12-19 23:28:15.752][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2024-12-19 23:28:15.760][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-12-19 23:28:15.763][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2024-12-19 23:28:15.766][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-19 23:28:16.992][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2024-12-19 23:28:16.999][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-12-19 23:28:17.004][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-12-19 23:28:17.006][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-12-19 23:28:17.008][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI%20ID&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2024-12-19 23:28:17.327][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI%20ID&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2024-12-19 23:28:17.642][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-12-19 23:28:17.646][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content"
biodb.TRACE[2024-12-19 23:28:17.654][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.request"
biodb.INFO [2024-12-19 23:28:17.673][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-12-19 23:28:17.675][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2024-12-19 23:28:17.678][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2024-12-19 23:28:17.680][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-12-19 23:28:17.681][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:17.683][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:17.685][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:17.687][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:17.689][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:17.691][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-12-19 23:28:17.698][biodb::testContext]
biodb.INFO [2024-12-19 23:28:17.700][biodb::testContext] ********************************************************************************
biodb.INFO [2024-12-19 23:28:17.702][biodb::testContext] Test context - Non regression tests
biodb.INFO [2024-12-19 23:28:17.704][biodb::testContext] ********************************************************************************
biodb.INFO [2024-12-19 23:28:17.706][biodb::testContext]
biodb.INFO [2024-12-19 23:28:17.710][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2024-12-19 23:28:17.714][self$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.20-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2024-12-19 23:28:17.723][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-12-19 23:28:17.725][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-12-19 23:28:17.727][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-12-19 23:28:17.729][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:17.731][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:17.733][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:17.734][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-12-19 23:28:17.736][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-12-19 23:28:17.738][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:17.740][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:17.742][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:17.743][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-12-19 23:28:17.745][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-12-19 23:28:17.747][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:17.749][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:17.751][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:17.752][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-12-19 23:28:17.754][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-12-19 23:28:17.756][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-12-19 23:28:17.758][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:17.760][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:17.761][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:17.763][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-12-19 23:28:17.765][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-12-19 23:28:17.767][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-12-19 23:28:17.769][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:17.770][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:17.772][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:17.774][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-12-19 23:28:17.776][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-12-19 23:28:17.778][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:17.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:17.781][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:17.783][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-12-19 23:28:17.785][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-12-19 23:28:17.787][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-12-19 23:28:17.788][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:17.790][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:17.792][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[2024-12-19 23:28:17.794][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-12-19 23:28:17.796][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-12-19 23:28:17.797][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:17.799][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:17.801][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:17.803][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-12-19 23:28:17.804][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-12-19 23:28:17.806][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-12-19 23:28:17.808][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:17.810][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:17.812][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:17.813][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-12-19 23:28:17.815][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-12-19 23:28:17.817][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-12-19 23:28:17.819][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-12-19 23:28:17.821][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-12-19 23:28:17.823][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-12-19 23:28:17.825][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:17.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:17.828][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:17.830][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-12-19 23:28:17.832][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-12-19 23:28:17.834][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:17.835][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:17.837][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:17.839][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-12-19 23:28:17.841][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-12-19 23:28:17.843][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:17.844][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:17.846][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:17.848][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-12-19 23:28:17.850][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-12-19 23:28:17.852][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:17.853][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:17.855][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:17.857][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-12-19 23:28:17.859][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-12-19 23:28:17.861][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:17.863][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:17.864][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:17.866][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-12-19 23:28:17.868][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-12-19 23:28:17.870][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:17.872][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:17.873][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:17.875][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-12-19 23:28:17.877][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-12-19 23:28:17.883][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-12-19 23:28:17.885][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:17.887][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:17.888][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:17.890][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-12-19 23:28:17.892][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-12-19 23:28:17.894][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-12-19 23:28:17.896][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:17.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:17.900][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:17.902][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-12-19 23:28:17.905][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-12-19 23:28:17.907][self$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[2024-12-19 23:28:17.909][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-12-19 23:28:17.911][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-12-19 23:28:17.913][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-12-19 23:28:17.915][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-12-19 23:28:17.917][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-12-19 23:28:17.919][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-12-19 23:28:17.921][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-12-19 23:28:17.923][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-12-19 23:28:17.925][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-12-19 23:28:17.927][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-12-19 23:28:17.929][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-12-19 23:28:17.930][self$setPropertyValue]
biodb.DEBUG[2024-12-19 23:28:17.932][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-12-19 23:28:17.934][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-12-19 23:28:17.934][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-12-19 23:28:17.934][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-12-19 23:28:17.934][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-12-19 23:28:17.934][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-12-19 23:28:17.936][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-12-19 23:28:17.937][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-19 23:28:17.938][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-19 23:28:17.939][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-12-19 23:28:17.941][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-19 23:28:17.942][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-19 23:28:17.943][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-12-19 23:28:17.944][self$setPropertyValue]
biodb.DEBUG[2024-12-19 23:28:17.945][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-12-19 23:28:17.947][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-12-19 23:28:17.949][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-12-19 23:28:17.951][self$setPropertyValue]
biodb.DEBUG[2024-12-19 23:28:17.953][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-12-19 23:28:17.956][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-12-19 23:28:17.958][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-12-19 23:28:17.961][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-12-19 23:28:17.963][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-12-19 23:28:17.965][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-12-19 23:28:17.967][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-12-19 23:28:17.969][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-12-19 23:28:17.971][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-12-19 23:28:17.972][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-12-19 23:28:17.974][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-12-19 23:28:17.976][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-12-19 23:28:17.978][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-12-19 23:28:17.980][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-12-19 23:28:17.982][self$setPropertyValue]
biodb.DEBUG[2024-12-19 23:28:17.984][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-12-19 23:28:17.986][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-12-19 23:28:17.986][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-12-19 23:28:17.986][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-12-19 23:28:17.986][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-12-19 23:28:17.986][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-12-19 23:28:17.988][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-12-19 23:28:17.990][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-19 23:28:17.992][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-19 23:28:17.994][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-12-19 23:28:17.996][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-19 23:28:17.998][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-19 23:28:18.000][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-12-19 23:28:18.002][self$setPropertyValue]
biodb.DEBUG[2024-12-19 23:28:18.004][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-12-19 23:28:18.005][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-12-19 23:28:18.007][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-12-19 23:28:18.009][self$setPropertyValue]
biodb.DEBUG[2024-12-19 23:28:18.012][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-12-19 23:28:18.015][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-12-19 23:28:18.017][self$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[2024-12-19 23:28:18.019][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-12-19 23:28:18.022][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-12-19 23:28:18.024][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-12-19 23:28:18.026][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-12-19 23:28:18.028][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-12-19 23:28:18.030][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-12-19 23:28:18.032][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-12-19 23:28:18.034][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-12-19 23:28:18.036][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-12-19 23:28:18.038][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-12-19 23:28:18.040][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-12-19 23:28:18.042][self$setPropertyValue]
biodb.DEBUG[2024-12-19 23:28:18.044][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-12-19 23:28:18.046][self$setPropertyValue]
biodb.DEBUG[2024-12-19 23:28:18.048][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-12-19 23:28:18.050][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-19 23:28:18.052][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-19 23:28:18.054][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-12-19 23:28:18.056][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-19 23:28:18.058][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-19 23:28:18.060][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-12-19 23:28:18.062][self$setPropertyValue]
biodb.DEBUG[2024-12-19 23:28:18.063][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-12-19 23:28:18.065][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-12-19 23:28:18.067][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-12-19 23:28:18.069][self$setPropertyValue]
biodb.DEBUG[2024-12-19 23:28:18.071][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-12-19 23:28:18.075][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-12-19 23:28:18.077][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-12-19 23:28:18.079][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-12-19 23:28:18.081][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-12-19 23:28:18.083][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-12-19 23:28:18.085][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-12-19 23:28:18.087][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-12-19 23:28:18.089][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-12-19 23:28:18.091][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-12-19 23:28:18.092][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-12-19 23:28:18.095][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-12-19 23:28:18.096][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-12-19 23:28:18.098][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-12-19 23:28:18.100][self$setPropertyValue]
biodb.DEBUG[2024-12-19 23:28:18.102][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-12-19 23:28:18.104][self$setPropertyValue]
biodb.DEBUG[2024-12-19 23:28:18.106][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-12-19 23:28:18.108][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-19 23:28:18.110][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-19 23:28:18.112][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-12-19 23:28:18.114][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-19 23:28:18.116][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-19 23:28:18.118][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-12-19 23:28:18.120][self$setPropertyValue]
biodb.DEBUG[2024-12-19 23:28:18.121][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-12-19 23:28:18.122][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-12-19 23:28:18.129][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-12-19 23:28:18.133][self$setPropertyValue]
biodb.DEBUG[2024-12-19 23:28:18.134][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-12-19 23:28:18.135][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:18.136][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[2024-12-19 23:28:18.137][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:18.138][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:18.140][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:18.141][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:18.142][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[2024-12-19 23:28:18.143][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:18.144][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:18.145][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:18.146][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:18.147][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:18.148][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:18.149][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:18.150][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:18.151][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:18.152][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.DEBUG[2024-12-19 23:28:18.154][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:18.155][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:18.156][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:18.157][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:18.158][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:18.159][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:18.160][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:18.161][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:18.162][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:18.163][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:18.165][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:18.166][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:18.167][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:18.168][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:18.169][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:18.170][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:18.171][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:18.172][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:18.174][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:18.176][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:18.177][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:18.179][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:18.181][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:18.182][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:18.184][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:18.186][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:18.187][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:18.189][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:18.191][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:18.193][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:18.194][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:18.196][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:18.198][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:18.199][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:18.201][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[2024-12-19 23:28:18.203][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:18.205][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:18.206][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:18.208][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:18.210][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[2024-12-19 23:28:18.211][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:18.213][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:18.215][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:18.216][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:18.218][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:18.220][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:18.221][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:18.222][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:18.224][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:18.225][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:18.226][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:18.227][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:18.228][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:18.229][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:18.230][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.DEBUG[2024-12-19 23:28:18.232][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:18.234][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:18.235][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:18.237][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:18.239][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:18.240][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:18.242][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:18.244][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:18.245][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:18.247][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.DEBUG[2024-12-19 23:28:18.249][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:18.250][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:18.252][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:18.254][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:18.256][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:18.258][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-12-19 23:28:18.260][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-12-19 23:28:18.263][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-12-19 23:28:18.265][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-12-19 23:28:18.268][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-12-19 23:28:18.270][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-12-19 23:28:18.273][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-12-19 23:28:18.276][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-12-19 23:28:18.278][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-12-19 23:28:18.281][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-12-19 23:28:18.283][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-12-19 23:28:18.286][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-12-19 23:28:18.288][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-12-19 23:28:18.291][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-12-19 23:28:18.294][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-12-19 23:28:18.296][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-12-19 23:28:18.299][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-12-19 23:28:18.301][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-12-19 23:28:18.304][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-12-19 23:28:18.307][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-12-19 23:28:18.309][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-12-19 23:28:18.312][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-12-19 23:28:18.315][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-12-19 23:28:18.317][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-12-19 23:28:18.320][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-12-19 23:28:18.322][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-12-19 23:28:18.325][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-12-19 23:28:18.327][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-12-19 23:28:18.330][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-12-19 23:28:18.332][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-12-19 23:28:18.335][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-12-19 23:28:18.338][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-12-19 23:28:18.340][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-12-19 23:28:18.343][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-12-19 23:28:18.345][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-12-19 23:28:18.348][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-12-19 23:28:18.350][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-12-19 23:28:18.353][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-12-19 23:28:18.355][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-12-19 23:28:18.358][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-12-19 23:28:18.361][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-12-19 23:28:18.363][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-12-19 23:28:18.366][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-12-19 23:28:18.368][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-12-19 23:28:18.371][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-12-19 23:28:18.373][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-12-19 23:28:18.376][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-12-19 23:28:18.378][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-12-19 23:28:18.381][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-12-19 23:28:18.383][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-12-19 23:28:18.386][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-12-19 23:28:18.388][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-12-19 23:28:18.391][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-12-19 23:28:18.394][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-12-19 23:28:18.396][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-12-19 23:28:18.399][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-12-19 23:28:18.401][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-12-19 23:28:18.404][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-12-19 23:28:18.406][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-12-19 23:28:18.409][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-12-19 23:28:18.411][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-12-19 23:28:18.414][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-12-19 23:28:18.416][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-12-19 23:28:18.419][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-12-19 23:28:18.421][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-12-19 23:28:18.424][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-12-19 23:28:18.426][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-12-19 23:28:18.429][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-12-19 23:28:18.431][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-12-19 23:28:18.434][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-12-19 23:28:18.436][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-12-19 23:28:18.439][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-12-19 23:28:18.441][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-12-19 23:28:18.444][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-12-19 23:28:18.446][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-12-19 23:28:18.449][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-12-19 23:28:18.451][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-12-19 23:28:18.454][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-12-19 23:28:18.456][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-12-19 23:28:18.459][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-12-19 23:28:18.461][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-12-19 23:28:18.464][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-12-19 23:28:18.466][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-12-19 23:28:18.469][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-12-19 23:28:18.473][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2024-12-19 23:28:18.475][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-12-19 23:28:18.476][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:18.478][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:18.480][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:18.482][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:18.484][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:18.485][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:18.487][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:18.489][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:18.491][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:18.492][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:18.494][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:18.496][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:18.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:18.500][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:18.502][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:18.503][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:18.505][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:18.507][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:18.509][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:18.510][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:18.512][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:18.514][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:18.516][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:18.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:18.520][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:18.521][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:18.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:18.525][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:18.526][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:18.528][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:18.530][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:18.531][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:18.533][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:18.535][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:18.537][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:18.538][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:18.540][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:18.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:18.544][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:18.545][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:18.547][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:18.549][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:18.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:18.552][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:18.554][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:18.556][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:18.558][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:18.559][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:18.561][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:18.563][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:18.564][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:18.566][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:18.568][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:18.570][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:18.571][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:18.573][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:18.575][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:18.576][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:18.578][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:18.580][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[2024-12-19 23:28:18.582][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:18.583][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:18.585][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:18.586][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:18.588][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:18.590][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:18.591][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:18.593][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:18.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:18.597][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:18.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:18.600][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:18.602][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:18.603][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[2024-12-19 23:28:18.605][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:18.607][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:18.609][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:18.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:18.612][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:18.614][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:18.616][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:18.617][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:18.619][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:18.621][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:18.622][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:18.623][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:18.625][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:18.626][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:18.628][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:18.629][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:18.630][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:18.631][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:18.632][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:18.633][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:18.634][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:18.635][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:18.636][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:18.637][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:18.638][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:18.639][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:18.640][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:18.641][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:18.643][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:18.644][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:18.645][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:18.646][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:18.648][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:18.649][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:18.650][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:18.652][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:18.654][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:18.655][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:18.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:18.661][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:18.663][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:18.665][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:18.667][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-19 23:28:18.669][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:18.671][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:18.672][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:18.674][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:18.676][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:18.678][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:18.682][biodb$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.20-bioc/R/library/biodbChebi/definitions.yml".
biodb.DEBUG[2024-12-19 23:28:18.685][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2024-12-19 23:28:18.689][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-12-19 23:28:18.691][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-12-19 23:28:18.693][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-12-19 23:28:18.695][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-12-19 23:28:18.697][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-12-19 23:28:18.699][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-12-19 23:28:18.701][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-12-19 23:28:18.704][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2024-12-19 23:28:18.706][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-12-19 23:28:18.708][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-12-19 23:28:18.720][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-12-19 23:28:18.722][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2024-12-19 23:28:18.725][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-12-19 23:28:18.727][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2024-12-19 23:28:18.727][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2024-12-19 23:28:18.727][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2024-12-19 23:28:18.727][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2024-12-19 23:28:18.727][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2024-12-19 23:28:18.727][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2024-12-19 23:28:18.727][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2024-12-19 23:28:18.727][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2024-12-19 23:28:18.727][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2024-12-19 23:28:18.727][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2024-12-19 23:28:18.727][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2024-12-19 23:28:18.729][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-12-19 23:28:18.731][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-12-19 23:28:18.731][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-12-19 23:28:18.731][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-12-19 23:28:18.734][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-12-19 23:28:18.735][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-19 23:28:18.737][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-19 23:28:18.739][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-12-19 23:28:18.741][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-19 23:28:18.743][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-19 23:28:18.745][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-12-19 23:28:18.747][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-12-19 23:28:18.747][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2024-12-19 23:28:18.749][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-12-19 23:28:18.750][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-12-19 23:28:18.752][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-12-19 23:28:18.754][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2024-12-19 23:28:18.754][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2024-12-19 23:28:18.757][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-12-19 23:28:18.760][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-12-19 23:28:18.762][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2024-12-19 23:28:18.765][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-12-19 23:28:18.768][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-12-19 23:28:18.771][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-12-19 23:28:18.777][super$initialize] Initialize connector chebi.
biodb.DEBUG[2024-12-19 23:28:18.779][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2024-12-19 23:28:18.781][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2024-12-19 23:28:18.784][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2024-12-19 23:28:18.787][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-12-19 23:28:18.788][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-12-19 23:28:18.791][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2024-12-19 23:28:18.793][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2024-12-19 23:28:18.796][biodb::testThat]
biodb.INFO [2024-12-19 23:28:18.798][biodb::testThat] Running test function test.chebi.encoding.issue.in.xml (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2024-12-19 23:28:18.800][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-12-19 23:28:18.802][biodb::testThat]
biodb.DEBUG[2024-12-19 23:28:18.808][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2024-12-19 23:28:18.815][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-12-19 23:28:18.819][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2024-12-19 23:28:18.821][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-19 23:28:18.824][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2024-12-19 23:28:18.829][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-12-19 23:28:18.833][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-12-19 23:28:18.835][cch$loadFileContent] Trying to load 1 files from cache: [1]: "04c26672f8368e71348af4b34238160e".
biodb.TRACE[2024-12-19 23:28:18.837][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-19 23:28:19.925][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content".
biodb.DEBUG[2024-12-19 23:28:19.931][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2024-12-19 23:28:19.933][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-12-19 23:28:19.935][cch$loadFileContent] Trying to load 1 files from cache: [1]: "2571".
biodb.TRACE[2024-12-19 23:28:19.937][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-12-19 23:28:19.938][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-12-19 23:28:19.940][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-12-19 23:28:19.941][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-12-19 23:28:19.943][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-12-19 23:28:19.944][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-12-19 23:28:19.947][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:28:19.948][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:19.950][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:19.957][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:19.959][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:19.960][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:19.961][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-19 23:28:19.963][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571".
biodb.DEBUG[2024-12-19 23:28:19.966][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-12-19 23:28:19.967][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-12-19 23:28:19.969][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571".
biodb.TRACE[2024-12-19 23:28:21.735][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571).
biodb.DEBUG[2024-12-19 23:28:22.326][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-12-19 23:28:22.330][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/52df2611aa7f9f4c531cce8ac62e2fa0.content"
biodb.TRACE[2024-12-19 23:28:22.338][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/52df2611aa7f9f4c531cce8ac62e2fa0.request"
biodb.TRACE[2024-12-19 23:28:22.344][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml"
biodb.DEBUG[2024-12-19 23:28:22.349][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-12-19 23:28:22.351][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-12-19 23:28:22.354][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-12-19 23:28:22.357][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-19 23:28:22.358][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:22.360][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:22.369][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:22.370][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:22.371][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:22.372][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-19 23:28:22.378][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:28:22.379][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:28:22.381][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:22.382][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:22.384][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:28:22.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:28:22.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:22.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:22.389][ef$get] Asked field names are: charge.
biodb.TRACE[2024-12-19 23:28:22.391][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-19 23:28:22.393][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:22.395][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:22.398][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-12-19 23:28:22.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-12-19 23:28:22.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:22.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:22.405][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-19 23:28:22.407][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-19 23:28:22.408][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:22.410][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:22.412][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-19 23:28:22.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-19 23:28:22.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:22.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:22.418][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-19 23:28:22.420][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-19 23:28:22.422][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:22.424][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:22.427][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-19 23:28:22.429][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-19 23:28:22.431][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:22.432][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:22.435][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:28:22.437][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:28:22.439][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:22.441][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:22.444][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:28:22.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-19 23:28:22.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:22.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:22.452][ef$get] Asked field names are: mass.
biodb.TRACE[2024-12-19 23:28:22.454][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:28:22.456][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:22.458][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:22.460][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-12-19 23:28:22.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-12-19 23:28:22.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:22.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:22.468][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:28:22.470][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:28:22.472][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:22.474][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:22.477][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:28:22.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-19 23:28:22.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:22.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:22.482][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:28:22.484][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:28:22.485][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:22.486][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:22.488][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-19 23:28:22.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-19 23:28:22.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:22.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:22.493][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-19 23:28:22.495][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-19 23:28:22.496][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:22.497][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:22.499][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-12-19 23:28:22.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-12-19 23:28:22.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:22.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:22.504][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-19 23:28:22.505][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-19 23:28:22.506][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:22.507][ef$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:22.509][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-19 23:28:22.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-19 23:28:22.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:22.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:22.514][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:28:22.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:28:22.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:22.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:22.519][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:28:22.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:28:22.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:22.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:22.524][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:28:22.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:28:22.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:22.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:22.529][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-19 23:28:22.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-19 23:28:22.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:22.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:22.534][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:28:22.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:28:22.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:22.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:22.538][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:28:22.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:28:22.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:22.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:22.543][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:28:22.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:28:22.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:22.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:22.548][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:28:22.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:28:22.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:22.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:22.555][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:28:22.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:28:22.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:22.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-19 23:28:22.562][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-19 23:28:22.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-19 23:28:22.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-19 23:28:22.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-19 23:28:22.570][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2024-12-19 23:28:22.579][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-12-19 23:28:22.582][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2024-12-19 23:28:22.584][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2024-12-19 23:28:22.586][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-12-19 23:28:22.588][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-19 23:28:22.589][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-19 23:28:22.591][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-19 23:28:22.593][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-19 23:28:22.595][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-12-19 23:28:22.596][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".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 386 ]
>
> proc.time()
user system elapsed
27.37 2.76 91.92
biodbChebi.Rcheck/biodbChebi-Ex.timings
| name | user | system | elapsed | |
| ChebiConn | 3.85 | 2.22 | 82.85 | |
| ChebiEntry | 0.83 | 0.00 | 0.83 | |