Back to Long Tests report for BioC 3.23

This page was generated on 2026-03-14 23:55 -0400 (Sat, 14 Mar 2026).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.3 LTS)x86_64R Under development (unstable) (2026-03-05 r89546) -- "Unsuffered Consequences" 4837
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 6/28HostnameOS / ArchCHECK
biodbChebi 1.17.1  (landing page)
Pierrick Roger
Snapshot Date: 2026-03-14 09:55 -0400 (Sat, 14 Mar 2026)
git_url: https://git.bioconductor.org/packages/biodbChebi
git_branch: devel
git_last_commit: 00b5d36
git_last_commit_date: 2026-02-03 10:53:27 -0400 (Tue, 03 Feb 2026)
nebbiolo1Linux (Ubuntu 24.04.3 LTS) / x86_64  ERROR  

CHECK results for biodbChebi on nebbiolo1

To the developers/maintainers of the biodbChebi package:
- 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.

raw results


Summary

Package: biodbChebi
Version: 1.17.1
Command: /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD check --test-dir=longtests --no-stop-on-test-error --no-codoc --no-examples --no-manual --ignore-vignettes --check-subdirs=no biodbChebi_1.17.1.tar.gz
StartedAt: 2026-03-14 16:01:05 -0400 (Sat, 14 Mar 2026)
EndedAt: 2026-03-14 16:02:15 -0400 (Sat, 14 Mar 2026)
EllapsedTime: 70.0 seconds
RetCode: 1
Status:   ERROR  
CheckDir: biodbChebi.Rcheck
Warnings: NA

Tests output

biodbChebi.Rcheck/tests/testthat.Rout.fail


R Under development (unstable) (2026-03-05 r89546) -- "Unsuffered Consequences"
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Platform: x86_64-pc-linux-gnu

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> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbChebi)
Warning message:
In fun(libname, pkgname) :
  Package 'biodbChebi' is deprecated and will be removed from
  Bioconductor version 3.24
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbChebi")
biodb.INFO [2026-03-14 16:01:44.165][biodb::testContext]
biodb.INFO [2026-03-14 16:01:44.167][biodb::testContext] ********************************************************************************
biodb.INFO [2026-03-14 16:01:44.168][biodb::testContext] Test context - Generic long tests
biodb.INFO [2026-03-14 16:01:44.169][biodb::testContext] ********************************************************************************
biodb.INFO [2026-03-14 16:01:44.170][biodb::testContext]
biodb.INFO [2026-03-14 16:01:44.176][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.19.0.
biodb.DEBUG[2026-03-14 16:01:44.178][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.23-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2026-03-14 16:01:44.184][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2026-03-14 16:01:44.185][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2026-03-14 16:01:44.186][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2026-03-14 16:01:44.187][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.188][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.189][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.190][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2026-03-14 16:01:44.207][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2026-03-14 16:01:44.208][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.209][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.210][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[2026-03-14 16:01:44.210][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2026-03-14 16:01:44.212][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2026-03-14 16:01:44.212][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.213][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.214][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.215][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2026-03-14 16:01:44.216][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2026-03-14 16:01:44.217][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2026-03-14 16:01:44.218][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.219][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.220][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.221][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2026-03-14 16:01:44.222][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2026-03-14 16:01:44.223][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2026-03-14 16:01:44.224][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.225][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.225][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.226][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2026-03-14 16:01:44.227][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2026-03-14 16:01:44.228][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.229][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.230][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[2026-03-14 16:01:44.238][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2026-03-14 16:01:44.239][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2026-03-14 16:01:44.240][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2026-03-14 16:01:44.241][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.242][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.243][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.244][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2026-03-14 16:01:44.245][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2026-03-14 16:01:44.246][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.247][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.248][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.249][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2026-03-14 16:01:44.250][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2026-03-14 16:01:44.251][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2026-03-14 16:01:44.251][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.252][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.253][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.254][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2026-03-14 16:01:44.255][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2026-03-14 16:01:44.256][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2026-03-14 16:01:44.257][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2026-03-14 16:01:44.258][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2026-03-14 16:01:44.259][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2026-03-14 16:01:44.260][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.261][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.262][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.263][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2026-03-14 16:01:44.264][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2026-03-14 16:01:44.264][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.265][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.266][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.267][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2026-03-14 16:01:44.268][self$set] Set key entries.sep to "|".
biodb.DEBUG[2026-03-14 16:01:44.269][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.270][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.271][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.272][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2026-03-14 16:01:44.273][self$set] Set key offline to FALSE.
biodb.DEBUG[2026-03-14 16:01:44.273][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.274][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.275][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.276][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2026-03-14 16:01:44.277][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2026-03-14 16:01:44.278][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2026-03-14 16:01:44.279][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.280][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.281][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.282][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2026-03-14 16:01:44.283][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2026-03-14 16:01:44.287][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2026-03-14 16:01:44.288][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.288][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.289][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.290][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2026-03-14 16:01:44.291][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2026-03-14 16:01:44.292][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2026-03-14 16:01:44.293][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.294][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.295][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.298][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2026-03-14 16:01:44.329][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2026-03-14 16:01:44.344][self$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[2026-03-14 16:01:44.345][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-03-14 16:01:44.346][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-03-14 16:01:44.347][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-03-14 16:01:44.348][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-03-14 16:01:44.349][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2026-03-14 16:01:44.349][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2026-03-14 16:01:44.350][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2026-03-14 16:01:44.351][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-03-14 16:01:44.352][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2026-03-14 16:01:44.353][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2026-03-14 16:01:44.354][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-03-14 16:01:44.355][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2026-03-14 16:01:44.356][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2026-03-14 16:01:44.357][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2026-03-14 16:01:44.357][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2026-03-14 16:01:44.357][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2026-03-14 16:01:44.357][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2026-03-14 16:01:44.357][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2026-03-14 16:01:44.358][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2026-03-14 16:01:44.359][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-03-14 16:01:44.360][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-03-14 16:01:44.361][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-03-14 16:01:44.362][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-03-14 16:01:44.363][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-03-14 16:01:44.364][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-03-14 16:01:44.365][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2026-03-14 16:01:44.366][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-03-14 16:01:44.367][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-03-14 16:01:44.367][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2026-03-14 16:01:44.368][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2026-03-14 16:01:44.370][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2026-03-14 16:01:44.371][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2026-03-14 16:01:44.372][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2026-03-14 16:01:44.373][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-03-14 16:01:44.374][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-03-14 16:01:44.375][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-03-14 16:01:44.376][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-03-14 16:01:44.377][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2026-03-14 16:01:44.378][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2026-03-14 16:01:44.379][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2026-03-14 16:01:44.380][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-03-14 16:01:44.381][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2026-03-14 16:01:44.382][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2026-03-14 16:01:44.383][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-03-14 16:01:44.384][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2026-03-14 16:01:44.385][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2026-03-14 16:01:44.386][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2026-03-14 16:01:44.386][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2026-03-14 16:01:44.386][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2026-03-14 16:01:44.386][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2026-03-14 16:01:44.386][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2026-03-14 16:01:44.387][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2026-03-14 16:01:44.388][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-03-14 16:01:44.389][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-03-14 16:01:44.390][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-03-14 16:01:44.390][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-03-14 16:01:44.391][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-03-14 16:01:44.392][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-03-14 16:01:44.393][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2026-03-14 16:01:44.394][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-03-14 16:01:44.395][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-03-14 16:01:44.396][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2026-03-14 16:01:44.397][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2026-03-14 16:01:44.398][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2026-03-14 16:01:44.400][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2026-03-14 16:01:44.401][self$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[2026-03-14 16:01:44.406][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-03-14 16:01:44.407][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-03-14 16:01:44.408][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-03-14 16:01:44.409][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-03-14 16:01:44.410][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2026-03-14 16:01:44.411][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2026-03-14 16:01:44.412][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2026-03-14 16:01:44.412][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-03-14 16:01:44.413][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2026-03-14 16:01:44.414][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2026-03-14 16:01:44.415][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-03-14 16:01:44.416][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2026-03-14 16:01:44.417][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2026-03-14 16:01:44.418][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2026-03-14 16:01:44.419][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2026-03-14 16:01:44.420][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-03-14 16:01:44.421][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-03-14 16:01:44.422][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-03-14 16:01:44.423][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-03-14 16:01:44.424][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-03-14 16:01:44.425][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-03-14 16:01:44.426][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2026-03-14 16:01:44.427][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-03-14 16:01:44.428][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-03-14 16:01:44.429][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2026-03-14 16:01:44.430][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2026-03-14 16:01:44.431][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2026-03-14 16:01:44.432][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2026-03-14 16:01:44.433][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2026-03-14 16:01:44.434][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-03-14 16:01:44.435][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-03-14 16:01:44.436][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-03-14 16:01:44.437][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-03-14 16:01:44.438][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2026-03-14 16:01:44.439][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2026-03-14 16:01:44.440][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2026-03-14 16:01:44.441][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-03-14 16:01:44.442][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2026-03-14 16:01:44.443][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2026-03-14 16:01:44.444][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-03-14 16:01:44.445][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2026-03-14 16:01:44.446][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2026-03-14 16:01:44.447][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2026-03-14 16:01:44.448][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2026-03-14 16:01:44.449][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-03-14 16:01:44.450][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-03-14 16:01:44.451][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-03-14 16:01:44.451][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-03-14 16:01:44.452][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-03-14 16:01:44.453][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-03-14 16:01:44.454][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2026-03-14 16:01:44.455][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-03-14 16:01:44.456][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-03-14 16:01:44.457][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2026-03-14 16:01:44.458][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2026-03-14 16:01:44.461][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2026-03-14 16:01:44.462][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.463][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.DEBUG[2026-03-14 16:01:44.464][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.465][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.466][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.467][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.468][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.469][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.469][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.470][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.471][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.472][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.473][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.474][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.475][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.476][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.476][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.477][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.478][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.479][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.480][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.481][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.482][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.483][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.483][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.484][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.485][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.486][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.487][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.488][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.489][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.490][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.490][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.491][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.492][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.493][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.494][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.495][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.496][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.496][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.498][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.499][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.500][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.501][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.502][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.503][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.504][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.504][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.505][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.506][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.507][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[2026-03-14 16:01:44.508][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.509][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.510][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.510][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.511][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.512][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.513][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.514][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.515][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.516][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[2026-03-14 16:01:44.517][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.517][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.518][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.519][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.520][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[2026-03-14 16:01:44.521][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.522][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.523][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.524][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.524][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.525][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.526][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.527][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.528][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.529][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[2026-03-14 16:01:44.530][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.531][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.531][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.532][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.533][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.534][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2026-03-14 16:01:44.538][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2026-03-14 16:01:44.540][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2026-03-14 16:01:44.541][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2026-03-14 16:01:44.543][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2026-03-14 16:01:44.544][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2026-03-14 16:01:44.545][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2026-03-14 16:01:44.547][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2026-03-14 16:01:44.548][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2026-03-14 16:01:44.554][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2026-03-14 16:01:44.557][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2026-03-14 16:01:44.558][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2026-03-14 16:01:44.560][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2026-03-14 16:01:44.561][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2026-03-14 16:01:44.563][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2026-03-14 16:01:44.564][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2026-03-14 16:01:44.566][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2026-03-14 16:01:44.567][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2026-03-14 16:01:44.569][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2026-03-14 16:01:44.570][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2026-03-14 16:01:44.572][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2026-03-14 16:01:44.573][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2026-03-14 16:01:44.575][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2026-03-14 16:01:44.576][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2026-03-14 16:01:44.578][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2026-03-14 16:01:44.594][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2026-03-14 16:01:44.596][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2026-03-14 16:01:44.597][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2026-03-14 16:01:44.599][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2026-03-14 16:01:44.600][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2026-03-14 16:01:44.602][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2026-03-14 16:01:44.603][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2026-03-14 16:01:44.605][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2026-03-14 16:01:44.606][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2026-03-14 16:01:44.608][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2026-03-14 16:01:44.609][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2026-03-14 16:01:44.611][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2026-03-14 16:01:44.612][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2026-03-14 16:01:44.614][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2026-03-14 16:01:44.615][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2026-03-14 16:01:44.616][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2026-03-14 16:01:44.618][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2026-03-14 16:01:44.619][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2026-03-14 16:01:44.621][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2026-03-14 16:01:44.622][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2026-03-14 16:01:44.624][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2026-03-14 16:01:44.625][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2026-03-14 16:01:44.627][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2026-03-14 16:01:44.628][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2026-03-14 16:01:44.630][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2026-03-14 16:01:44.631][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2026-03-14 16:01:44.632][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2026-03-14 16:01:44.634][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2026-03-14 16:01:44.635][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2026-03-14 16:01:44.637][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2026-03-14 16:01:44.638][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2026-03-14 16:01:44.640][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2026-03-14 16:01:44.641][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2026-03-14 16:01:44.643][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2026-03-14 16:01:44.644][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2026-03-14 16:01:44.645][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2026-03-14 16:01:44.647][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2026-03-14 16:01:44.648][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2026-03-14 16:01:44.650][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2026-03-14 16:01:44.651][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2026-03-14 16:01:44.653][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2026-03-14 16:01:44.654][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2026-03-14 16:01:44.655][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2026-03-14 16:01:44.657][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2026-03-14 16:01:44.658][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2026-03-14 16:01:44.660][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2026-03-14 16:01:44.661][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2026-03-14 16:01:44.663][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2026-03-14 16:01:44.664][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2026-03-14 16:01:44.666][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2026-03-14 16:01:44.667][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2026-03-14 16:01:44.669][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2026-03-14 16:01:44.670][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2026-03-14 16:01:44.671][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2026-03-14 16:01:44.673][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2026-03-14 16:01:44.674][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2026-03-14 16:01:44.676][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2026-03-14 16:01:44.677][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2026-03-14 16:01:44.684][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2026-03-14 16:01:44.685][initialize] This is biodb version 1.19.0.
biodb.DEBUG[2026-03-14 16:01:44.689][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2026-03-14 16:01:44.689][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.690][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.691][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.692][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.697][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.698][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:01:44.699][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:01:44.700][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.701][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.702][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.703][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.704][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.705][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:01:44.706][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:01:44.707][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.708][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.709][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.710][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.710][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.711][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:01:44.712][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:01:44.713][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.714][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.715][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.716][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.717][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.718][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:01:44.719][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:01:44.720][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.721][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.722][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.723][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[2026-03-14 16:01:44.724][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.725][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:01:44.726][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:01:44.726][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.727][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.728][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.729][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[2026-03-14 16:01:44.730][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.731][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:01:44.732][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:01:44.733][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.734][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.735][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.736][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.737][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.738][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:01:44.739][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:01:44.740][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.741][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.741][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.742][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[2026-03-14 16:01:44.743][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.744][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:01:44.745][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:01:44.746][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.747][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.748][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.748][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.749][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.750][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:01:44.751][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:01:44.752][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.753][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.754][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.755][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.756][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.756][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:01:44.757][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:01:44.758][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.759][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.760][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.761][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[2026-03-14 16:01:44.762][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.762][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:01:44.767][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:01:44.768][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.769][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.770][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.771][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.772][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.773][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:01:44.773][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:01:44.774][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.775][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.776][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.777][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.778][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:01:44.780][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:01:44.780][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.781][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.782][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.783][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[2026-03-14 16:01:44.784][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.785][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:01:44.786][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:01:44.787][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.787][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.788][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.789][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[2026-03-14 16:01:44.790][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.791][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:01:44.792][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:01:44.793][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.794][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.794][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.795][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.796][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.797][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:01:44.798][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:01:44.799][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.800][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.801][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.801][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[2026-03-14 16:01:44.803][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.23-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/definitions.yml".
biodb.DEBUG[2026-03-14 16:01:44.812][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2026-03-14 16:01:44.814][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2026-03-14 16:01:44.815][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2026-03-14 16:01:44.816][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-03-14 16:01:44.817][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-03-14 16:01:44.818][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-03-14 16:01:44.819][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-03-14 16:01:44.820][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2026-03-14 16:01:44.821][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2026-03-14 16:01:44.822][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2026-03-14 16:01:44.823][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-03-14 16:01:44.824][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2026-03-14 16:01:44.825][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2026-03-14 16:01:44.826][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-03-14 16:01:44.827][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2026-03-14 16:01:44.827][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2026-03-14 16:01:44.827][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2026-03-14 16:01:44.827][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2026-03-14 16:01:44.827][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2026-03-14 16:01:44.827][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2026-03-14 16:01:44.827][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2026-03-14 16:01:44.827][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2026-03-14 16:01:44.827][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2026-03-14 16:01:44.827][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2026-03-14 16:01:44.827][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2026-03-14 16:01:44.828][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2026-03-14 16:01:44.829][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2026-03-14 16:01:44.829][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2026-03-14 16:01:44.829][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2026-03-14 16:01:44.830][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2026-03-14 16:01:44.831][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-03-14 16:01:44.832][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-03-14 16:01:44.833][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-03-14 16:01:44.834][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-03-14 16:01:44.834][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-03-14 16:01:44.835][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-03-14 16:01:44.836][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2026-03-14 16:01:44.836][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2026-03-14 16:01:44.837][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-03-14 16:01:44.838][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-03-14 16:01:44.839][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2026-03-14 16:01:44.840][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2026-03-14 16:01:44.840][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2026-03-14 16:01:44.846][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2026-03-14 16:01:44.847][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2026-03-14 16:01:44.849][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2026-03-14 16:01:44.850][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2026-03-14 16:01:44.851][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2026-03-14 16:01:44.853][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2026-03-14 16:01:44.874][super$initialize] Initialize connector chebi.
biodb.DEBUG[2026-03-14 16:01:44.888][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2026-03-14 16:01:44.896][biodb::testThat]
biodb.INFO [2026-03-14 16:01:44.897][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2026-03-14 16:01:44.898][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-14 16:01:44.899][biodb::testThat]
biodb.TRACE[2026-03-14 16:01:44.902][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.23-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2026-03-14 16:01:44.904][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2026-03-14 16:01:44.907][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2026-03-14 16:01:44.915][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-03-14 16:01:44.915][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:01:44.916][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:01:44.928][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.929][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.930][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.931][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-03-14 16:01:44.940][ef$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:44.941][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:44.942][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:44.943][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:44.945][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:44.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:44.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:44.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:44.968][ef$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:01:44.969][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:01:44.970][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:44.971][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:44.996][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:01:44.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:01:44.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:44.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.000][ef$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:01:45.001][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:01:45.002][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.003][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.004][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:01:45.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:01:45.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.008][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:01:45.009][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:01:45.010][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.011][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.012][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:01:45.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:01:45.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.016][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:01:45.017][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:01:45.018][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.019][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.020][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:01:45.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:01:45.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.024][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:45.025][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:45.026][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.027][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.029][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:45.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:45.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.032][ef$get] Asked field names are: mass.
biodb.TRACE[2026-03-14 16:01:45.033][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:45.034][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.035][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.037][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-03-14 16:01:45.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:45.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.041][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:45.042][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:45.043][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.043][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.045][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:45.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:45.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.049][ef$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:01:45.050][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:01:45.051][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.051][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.053][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:01:45.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:01:45.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.057][ef$get] Asked field names are: n_stars.
biodb.TRACE[2026-03-14 16:01:45.058][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:01:45.059][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.060][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.061][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2026-03-14 16:01:45.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:01:45.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.065][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:01:45.066][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:01:45.067][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.068][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.069][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:01:45.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:01:45.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.073][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:01:45.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:01:45.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.080][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:01:45.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:01:45.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.084][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:45.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:45.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.088][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:01:45.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:01:45.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.092][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:45.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:45.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.096][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:45.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:45.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.100][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:45.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:45.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.134][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:45.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:45.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.138][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:45.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:45.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.142][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:45.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:45.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-03-14 16:01:45.145][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2026-03-14 16:01:45.148][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:01:45.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:01:45.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.152][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:01:45.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:01:45.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.177][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:01:45.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:01:45.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.181][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:01:45.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:01:45.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.185][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:45.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:45.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.189][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:45.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:45.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.233][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-03-14 16:01:45.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-03-14 16:01:45.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.237][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-03-14 16:01:45.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-03-14 16:01:45.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.240][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2026-03-14 16:01:45.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2026-03-14 16:01:45.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.244][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2026-03-14 16:01:45.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2026-03-14 16:01:45.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.250][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:45.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:45.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.266][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:01:45.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:01:45.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.273][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:45.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:45.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.277][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:45.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:45.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.281][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:45.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:45.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.286][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:45.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:45.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.290][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:45.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:45.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.294][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:45.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:45.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.298][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:01:45.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:01:45.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.302][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:01:45.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:01:45.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.306][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:01:45.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:01:45.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.316][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:45.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:45.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.320][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:45.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:45.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.324][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:45.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:45.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.328][ef$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:45.329][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:45.330][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.331][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.332][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:45.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:45.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.343][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:01:45.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:01:45.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.347][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:01:45.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:01:45.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.351][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:01:45.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:01:45.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.355][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:01:45.356][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:01:45.357][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.358][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.359][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:01:45.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:01:45.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.374][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:01:45.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:01:45.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.378][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:01:45.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:01:45.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.382][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:01:45.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:01:45.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.386][ef$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:01:45.387][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:01:45.388][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.389][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.389][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:01:45.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:01:45.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.400][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:01:45.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:01:45.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.404][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:01:45.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:01:45.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.408][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:01:45.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:01:45.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.412][ef$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:01:45.413][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:01:45.414][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.415][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.416][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:01:45.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:01:45.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.427][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:45.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:45.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.431][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:45.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:45.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.435][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:45.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:45.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.439][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:45.440][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:45.441][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.442][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.443][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:45.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:45.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.453][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:45.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:45.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.457][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:45.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:45.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.461][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:45.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:45.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.465][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:45.466][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:45.467][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.468][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.469][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:45.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:45.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.480][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:01:45.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:01:45.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.484][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:01:45.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:01:45.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.488][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:01:45.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:01:45.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.492][ef$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:01:45.497][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:01:45.498][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.499][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.500][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:01:45.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:01:45.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.511][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-14 16:01:45.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:01:45.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.515][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-14 16:01:45.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:01:45.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.519][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-14 16:01:45.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:01:45.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.523][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-14 16:01:45.524][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:01:45.525][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.526][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.527][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-14 16:01:45.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:01:45.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.537][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:45.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:45.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.541][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:45.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:45.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.545][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:45.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:45.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.549][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:45.550][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:45.551][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.552][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.553][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:45.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:45.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.564][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:01:45.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:01:45.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.568][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:01:45.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:01:45.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.572][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:01:45.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:01:45.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.576][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:01:45.577][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:01:45.578][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.578][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.579][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:01:45.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:01:45.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.590][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:01:45.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:01:45.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.594][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:01:45.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:01:45.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.598][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:01:45.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:01:45.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.602][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:01:45.603][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:01:45.604][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.605][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.606][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:01:45.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:01:45.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.616][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:01:45.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:01:45.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.620][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:01:45.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:01:45.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.628][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:01:45.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:01:45.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.632][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:01:45.633][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:01:45.634][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.634][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.635][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:01:45.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:01:45.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.646][ef$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:45.647][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:45.648][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.649][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.653][ef$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:01:45.654][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:01:45.655][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.656][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.660][ef$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:01:45.661][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:01:45.662][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.663][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.667][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:01:45.668][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:01:45.669][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.670][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.673][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:01:45.674][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:01:45.675][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.676][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.680][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:45.681][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:45.682][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.683][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.687][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:45.688][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:45.689][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.690][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.694][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:45.695][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:45.696][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.697][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.701][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-14 16:01:45.702][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:01:45.703][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.703][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.707][ef$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:01:45.708][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:01:45.709][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.710][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.714][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:01:45.715][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:01:45.716][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.717][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.733][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.23-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-2528-content.xml".
biodb.DEBUG[2026-03-14 16:01:45.769][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2026-03-14 16:01:45.771][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2026-03-14 16:01:45.772][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-03-14 16:01:45.773][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:01:45.774][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:01:45.778][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:45.779][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:45.780][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:45.781][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-03-14 16:01:45.783][ef$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:45.784][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:45.785][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.786][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.787][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:45.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:45.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.806][ef$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:01:45.807][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:01:45.808][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.809][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.810][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:01:45.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:01:45.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.814][ef$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:01:45.815][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:01:45.816][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.817][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.819][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:01:45.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:01:45.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.823][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:01:45.824][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:01:45.825][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.826][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.827][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:01:45.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:01:45.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.831][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:01:45.832][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:01:45.833][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.834][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.835][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:01:45.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:01:45.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.839][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:45.840][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:45.841][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.842][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.843][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:45.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:45.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.847][ef$get] Asked field names are: mass.
biodb.TRACE[2026-03-14 16:01:45.848][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:45.849][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.850][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.851][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-03-14 16:01:45.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:45.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.855][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:45.856][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:45.857][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.858][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.859][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:45.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:45.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.863][ef$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:01:45.864][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:01:45.865][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.866][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.871][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:01:45.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:01:45.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.875][ef$get] Asked field names are: n_stars.
biodb.TRACE[2026-03-14 16:01:45.876][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:01:45.877][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.877][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.879][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2026-03-14 16:01:45.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:01:45.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.883][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:01:45.884][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:01:45.885][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.885][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.887][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:01:45.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:01:45.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.891][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:01:45.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:01:45.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.894][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:01:45.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:01:45.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.898][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:45.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:45.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.902][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:01:45.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:01:45.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.906][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:45.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:45.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.910][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:45.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:45.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.914][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:45.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:45.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.918][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:45.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:45.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.922][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:45.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:45.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.926][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:45.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:45.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-03-14 16:01:45.929][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 2528.
biodb.TRACE[2026-03-14 16:01:45.948][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:01:45.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:01:45.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.952][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:01:45.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:01:45.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.956][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:01:45.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:01:45.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.960][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:01:45.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:01:45.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.964][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:45.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:45.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.968][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:45.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:45.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.972][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-03-14 16:01:45.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-03-14 16:01:45.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.976][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-03-14 16:01:45.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-03-14 16:01:45.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.980][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2026-03-14 16:01:45.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2026-03-14 16:01:45.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.984][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2026-03-14 16:01:45.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2026-03-14 16:01:45.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.988][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:45.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:45.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.999][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.007][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.011][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.014][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.020][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.024][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.027][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.032][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.035][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.039][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.058][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.062][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.066][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.069][ef$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.070][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.071][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.072][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.073][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.084][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.088][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.092][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.096][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.097][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.098][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.099][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.100][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.110][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:01:46.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:01:46.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.114][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:01:46.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:01:46.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.118][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:01:46.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:01:46.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.126][ef$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:01:46.127][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:01:46.128][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.128][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.129][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:01:46.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:01:46.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.140][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:01:46.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:01:46.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.144][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:01:46.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:01:46.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.148][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:01:46.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:01:46.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.152][ef$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:01:46.153][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:01:46.154][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.155][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.156][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:01:46.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:01:46.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.166][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-03-14 16:01:46.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.170][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.174][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.178][ef$get] Asked field names are: mass.
biodb.TRACE[2026-03-14 16:01:46.179][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.180][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.181][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.182][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-03-14 16:01:46.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.193][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:46.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:46.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.197][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:46.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:46.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.201][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:46.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:46.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.205][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:46.206][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:46.207][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.207][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.208][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:46.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:46.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.219][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.223][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.227][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.231][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.232][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.233][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.234][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.235][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.245][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:01:46.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:01:46.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.253][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:01:46.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:01:46.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.257][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:01:46.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:01:46.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.261][ef$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:01:46.262][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:01:46.263][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.264][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.265][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:01:46.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:01:46.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.275][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-14 16:01:46.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:01:46.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.279][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-14 16:01:46.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:01:46.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.283][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-14 16:01:46.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:01:46.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.287][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-14 16:01:46.288][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:01:46.289][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.290][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.291][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-14 16:01:46.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:01:46.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.302][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:46.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:46.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.305][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:46.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:46.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.309][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:46.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:46.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.313][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:46.314][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:46.315][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.316][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.317][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:46.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:46.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.328][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:01:46.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:01:46.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.332][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:01:46.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:01:46.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.336][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:01:46.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:01:46.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.340][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:01:46.341][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:01:46.342][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.343][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.344][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:01:46.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:01:46.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.354][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:01:46.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:01:46.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.358][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:01:46.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:01:46.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.362][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:01:46.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:01:46.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.366][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:01:46.367][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:01:46.368][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.369][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.370][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:01:46.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:01:46.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.385][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:01:46.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:01:46.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.389][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:01:46.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:01:46.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.393][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:01:46.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:01:46.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.397][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:01:46.398][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:01:46.399][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.400][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.401][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:01:46.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:01:46.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.411][ef$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.412][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.413][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.414][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.418][ef$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:01:46.419][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:01:46.420][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.421][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.425][ef$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:01:46.426][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:01:46.427][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.428][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.432][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:01:46.433][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:01:46.434][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.435][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.439][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:01:46.440][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:01:46.441][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.442][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.446][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:46.447][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:46.448][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.449][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.452][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.454][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.454][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.455][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.459][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:46.460][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:46.461][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.462][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.466][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-14 16:01:46.467][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:01:46.468][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.469][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.473][ef$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:01:46.474][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:01:46.475][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.476][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.480][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:01:46.481][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:01:46.482][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.483][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.487][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.23-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-7799-content.xml".
biodb.DEBUG[2026-03-14 16:01:46.488][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2026-03-14 16:01:46.489][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2026-03-14 16:01:46.491][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-03-14 16:01:46.492][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:01:46.493][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:01:46.496][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:46.497][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:46.498][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:46.499][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-03-14 16:01:46.501][ef$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.502][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.503][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.504][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.506][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.514][ef$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:01:46.515][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:01:46.516][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.516][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.518][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:01:46.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:01:46.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.522][ef$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:01:46.523][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:01:46.524][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.525][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.526][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:01:46.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:01:46.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.530][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:01:46.531][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:01:46.532][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.533][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.534][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:01:46.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:01:46.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.538][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:01:46.539][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:01:46.540][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.541][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.542][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:01:46.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:01:46.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.546][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:46.547][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:46.548][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.549][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.550][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:46.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:46.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.554][ef$get] Asked field names are: mass.
biodb.TRACE[2026-03-14 16:01:46.555][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.556][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.557][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.558][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-03-14 16:01:46.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.562][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:46.563][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:46.564][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.565][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.566][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:46.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:46.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.570][ef$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:01:46.571][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:01:46.572][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.573][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.574][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:01:46.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:01:46.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.578][ef$get] Asked field names are: n_stars.
biodb.TRACE[2026-03-14 16:01:46.579][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:01:46.580][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.581][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.582][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2026-03-14 16:01:46.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:01:46.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.586][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:01:46.587][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:01:46.588][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.589][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.591][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:01:46.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:01:46.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.595][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.599][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.602][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.606][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.610][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.614][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.618][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.622][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.626][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.630][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-03-14 16:01:46.634][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 7799.
biodb.TRACE[2026-03-14 16:01:46.636][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:01:46.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:01:46.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.640][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:01:46.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:01:46.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.647][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:01:46.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:01:46.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.651][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:01:46.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:01:46.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.655][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.659][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.663][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-03-14 16:01:46.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-03-14 16:01:46.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.667][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-03-14 16:01:46.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-03-14 16:01:46.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.671][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2026-03-14 16:01:46.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2026-03-14 16:01:46.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.675][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2026-03-14 16:01:46.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2026-03-14 16:01:46.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.680][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.687][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.694][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.698][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.702][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.707][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.711][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.715][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.719][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.723][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.727][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.736][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.739][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.743][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.747][ef$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.748][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.749][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.750][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.751][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.762][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:01:46.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:01:46.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.766][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:01:46.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:01:46.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.770][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:01:46.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:01:46.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.778][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:01:46.779][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:01:46.780][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.781][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.782][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:01:46.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:01:46.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.793][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:01:46.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:01:46.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.797][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:01:46.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:01:46.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.801][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:01:46.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:01:46.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.805][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:01:46.806][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:01:46.807][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.808][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.808][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:01:46.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:01:46.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.819][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:01:46.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:01:46.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.823][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:01:46.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:01:46.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.827][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:01:46.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:01:46.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.831][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:01:46.832][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:01:46.833][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.834][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.835][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:01:46.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:01:46.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.845][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:46.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:46.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.849][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:46.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:46.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.853][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:46.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:46.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.857][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:46.858][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:46.859][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.860][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.861][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:46.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:46.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.872][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.876][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.880][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.884][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.885][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.886][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.886][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.887][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.898][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:46.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:46.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.906][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:46.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:46.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.910][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:46.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:46.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.913][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:46.915][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:46.915][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.916][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.917][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:46.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:46.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.928][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:01:46.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:01:46.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.932][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:01:46.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:01:46.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.936][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:01:46.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:01:46.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.940][ef$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:01:46.941][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:01:46.942][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.943][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.944][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:01:46.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:01:46.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.954][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-14 16:01:46.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:01:46.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.958][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-14 16:01:46.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:01:46.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.962][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-14 16:01:46.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:01:46.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.966][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-14 16:01:46.967][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:01:46.968][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.969][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.970][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-14 16:01:46.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:01:46.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.980][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:01:46.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:01:46.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.984][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:01:46.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:01:46.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.988][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:01:46.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:01:46.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.992][ef$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:01:46.993][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:01:46.994][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.995][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.996][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:01:46.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:01:46.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:47.006][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:01:47.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:01:47.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:47.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:47.010][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:01:47.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:01:47.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:47.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:47.014][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:01:47.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:01:47.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:47.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:47.018][ef$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:01:47.019][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:01:47.020][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:47.021][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:47.022][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:01:47.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:01:47.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:47.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:47.036][ef$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:47.037][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:47.038][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:47.039][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:47.043][ef$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:01:47.044][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:01:47.045][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:47.046][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:47.050][ef$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:01:47.051][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:01:47.052][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:47.053][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:47.057][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:01:47.058][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:01:47.059][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:47.060][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:47.064][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:01:47.065][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:01:47.066][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:47.067][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:47.071][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:47.072][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:47.073][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:47.073][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:47.077][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:47.078][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:47.079][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:47.080][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:47.084][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:47.085][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:47.086][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:47.087][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:47.091][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-14 16:01:47.092][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:01:47.093][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:47.094][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:47.098][ef$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:01:47.099][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:01:47.100][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:47.101][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:47.104][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:01:47.105][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:01:47.106][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:47.107][ef$get] fields variable is a list.
biodb.INFO [2026-03-14 16:01:47.114][biodb::testThat]
biodb.INFO [2026-03-14 16:01:47.115][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2026-03-14 16:01:47.116][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-14 16:01:47.117][biodb::testThat]
biodb.DEBUG[2026-03-14 16:01:47.119][private$loadEntries] Creating entries from ids [3]: "15440, 2528, 7799".
biodb.DEBUG[2026-03-14 16:01:47.123][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
fscache.INFO [2026-03-14 16:01:47.126][cch$loadContents] Load 3 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
biodb.DEBUG[2026-03-14 16:01:47.127][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2026-03-14 16:01:47.128][conn$getEntryContent] 3 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2026-03-14 16:01:47.129][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2026-03-14 16:01:47.130][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2026-03-14 16:01:47.136][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-03-14 16:01:47.137][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:01:47.138][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:01:47.142][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:47.142][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:47.143][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:47.144][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".
sched.DEBUG[2026-03-14 16:01:47.146][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
fscache.INFO [2026-03-14 16:01:47.169][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
sched.DEBUG[2026-03-14 16:01:47.170][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:01:47.171][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:01:47.173][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-03-14 16:01:48.161][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-03-14 16:01:48.163][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:01:48.166][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:01:48.169][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-03-14 16:01:48.627][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-03-14 16:01:48.629][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:01:48.632][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:01:48.635][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-03-14 16:01:48.967][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-03-14 16:01:48.969][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:01:48.971][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:01:48.974][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-03-14 16:01:49.424][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-03-14 16:01:49.426][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:01:49.428][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:01:49.431][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-03-14 16:01:49.762][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-03-14 16:01:49.764][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:01:49.767][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:01:49.769][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-03-14 16:01:50.218][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-03-14 16:01:50.221][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:01:50.223][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:01:50.226][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-03-14 16:01:50.560][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-03-14 16:01:50.563][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:01:50.565][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:01:50.568][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-03-14 16:01:51.020][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-03-14 16:01:51.022][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:01:51.025][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:01:51.028][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-03-14 16:01:51.360][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-03-14 16:01:51.363][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:01:51.365][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:01:51.367][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-03-14 16:01:51.814][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-03-14 16:01:51.817][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:01:51.819][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:01:51.822][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-03-14 16:01:52.171][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-03-14 16:01:52.178][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:01:52.182][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:01:52.186][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-03-14 16:01:52.638][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-03-14 16:01:52.641][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:01:52.645][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:01:52.651][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-03-14 16:01:52.987][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-03-14 16:01:52.990][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:01:52.994][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:01:52.997][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-03-14 16:01:53.559][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-03-14 16:01:53.563][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:01:53.566][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:01:53.570][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-03-14 16:01:53.928][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-03-14 16:01:53.931][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:01:53.934][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:01:53.937][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-03-14 16:01:54.474][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-03-14 16:01:54.475][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:01:54.477][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:01:54.478][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-03-14 16:01:54.806][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-03-14 16:01:54.808][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:01:54.809][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:01:54.811][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-03-14 16:01:55.348][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-03-14 16:01:55.351][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:01:55.355][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:01:55.358][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-03-14 16:01:55.692][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-03-14 16:01:55.695][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:01:55.697][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:01:55.700][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-03-14 16:01:56.148][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
biodb.DEBUG[2026-03-14 16:01:56.153][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-03-14 16:01:56.156][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:01:56.158][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:01:56.173][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:56.176][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:56.178][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:56.180][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2026-03-14 16:01:56.249][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
fscache.INFO [2026-03-14 16:01:56.281][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
sched.DEBUG[2026-03-14 16:01:56.298][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:01:56.299][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:01:56.301][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-03-14 16:01:56.630][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-03-14 16:01:56.633][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:01:56.635][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:01:56.637][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-03-14 16:01:57.085][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-03-14 16:01:57.088][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:01:57.090][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:01:57.093][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-03-14 16:01:57.427][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-03-14 16:01:57.430][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:01:57.432][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:01:57.435][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-03-14 16:01:57.884][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-03-14 16:01:57.887][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:01:57.889][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:01:57.892][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-03-14 16:01:58.223][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-03-14 16:01:58.225][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:01:58.228][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:01:58.230][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-03-14 16:01:58.677][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-03-14 16:01:58.680][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:01:58.683][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:01:58.686][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-03-14 16:01:59.021][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-03-14 16:01:59.023][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:01:59.025][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:01:59.027][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-03-14 16:01:59.474][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-03-14 16:01:59.477][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:01:59.479][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:01:59.482][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-03-14 16:01:59.822][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-03-14 16:01:59.828][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:01:59.832][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:01:59.834][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-03-14 16:02:00.286][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-03-14 16:02:00.289][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:02:00.291][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:02:00.296][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-03-14 16:02:00.630][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-03-14 16:02:00.633][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:02:00.635][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:02:00.638][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-03-14 16:02:01.087][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-03-14 16:02:01.089][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:02:01.092][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:02:01.096][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-03-14 16:02:01.429][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-03-14 16:02:01.431][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:02:01.433][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:02:01.435][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-03-14 16:02:01.935][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-03-14 16:02:01.950][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:02:01.952][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:02:01.954][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-03-14 16:02:02.283][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-03-14 16:02:02.285][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:02:02.288][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:02:02.290][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-03-14 16:02:02.737][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-03-14 16:02:02.740][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:02:02.743][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:02:02.747][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-03-14 16:02:03.080][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-03-14 16:02:03.083][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:02:03.086][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:02:03.089][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-03-14 16:02:03.538][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-03-14 16:02:03.541][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:02:03.543][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:02:03.547][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-03-14 16:02:03.878][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-03-14 16:02:03.880][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:02:03.883][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:02:03.885][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-03-14 16:02:04.331][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
biodb.DEBUG[2026-03-14 16:02:04.335][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-03-14 16:02:04.337][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:02:04.340][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:02:04.353][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:02:04.355][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:02:04.358][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:04.360][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".
sched.DEBUG[2026-03-14 16:02:04.363][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
fscache.INFO [2026-03-14 16:02:04.369][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
sched.DEBUG[2026-03-14 16:02:04.371][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:02:04.373][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:02:04.376][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-03-14 16:02:04.711][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-03-14 16:02:04.713][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:02:04.716][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:02:04.719][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-03-14 16:02:05.164][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-03-14 16:02:05.167][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:02:05.170][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:02:05.173][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-03-14 16:02:05.506][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-03-14 16:02:05.509][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:02:05.512][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:02:05.515][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-03-14 16:02:05.961][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-03-14 16:02:05.964][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:02:05.967][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:02:05.971][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-03-14 16:02:06.303][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-03-14 16:02:06.306][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:02:06.309][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:02:06.312][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-03-14 16:02:06.759][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-03-14 16:02:06.763][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:02:06.766][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:02:06.771][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-03-14 16:02:07.103][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-03-14 16:02:07.105][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:02:07.108][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:02:07.111][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-03-14 16:02:07.558][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-03-14 16:02:07.562][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:02:07.564][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:02:07.568][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-03-14 16:02:07.900][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-03-14 16:02:07.902][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:02:07.905][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:02:07.908][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-03-14 16:02:08.355][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-03-14 16:02:08.359][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:02:08.362][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:02:08.365][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-03-14 16:02:08.703][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-03-14 16:02:08.709][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:02:08.711][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:02:08.714][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-03-14 16:02:09.255][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-03-14 16:02:09.259][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:02:09.262][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:02:09.267][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-03-14 16:02:09.630][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-03-14 16:02:09.633][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:02:09.636][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:02:09.639][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-03-14 16:02:10.086][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-03-14 16:02:10.089][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:02:10.091][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:02:10.095][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-03-14 16:02:10.427][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-03-14 16:02:10.430][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:02:10.433][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:02:10.436][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-03-14 16:02:10.883][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-03-14 16:02:10.886][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:02:10.888][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:02:10.892][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-03-14 16:02:11.223][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-03-14 16:02:11.225][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:02:11.228][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:02:11.231][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-03-14 16:02:11.676][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-03-14 16:02:11.679][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:02:11.682][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:02:11.686][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-03-14 16:02:12.018][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-03-14 16:02:12.021][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:02:12.097][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:02:12.122][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-03-14 16:02:12.664][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
fscache.INFO [2026-03-14 16:02:12.669][cch$saveContents] Save 3 contents to /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
biodb.DEBUG[2026-03-14 16:02:12.673][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2026-03-14 16:02:12.677][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2026-03-14 16:02:12.680][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2026-03-14 16:02:12.685][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-03-14 16:02:12.688][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:02:12.690][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:02:12.704][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:02:12.706][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:02:12.708][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:12.710][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-03-14 16:02:12.714][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:02:12.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:02:12.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:12.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:12.721][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:02:12.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:02:12.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:12.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:12.728][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:12.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:12.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:12.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-03-14 16:02:12.734][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-03-14 16:02:12.735][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:02:12.736][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:02:12.742][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:02:12.743][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:02:12.744][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:12.746][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-03-14 16:02:12.748][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:02:12.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:02:12.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:12.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:12.752][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:02:12.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:02:12.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:12.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:12.757][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:12.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:12.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:12.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-03-14 16:02:12.761][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-03-14 16:02:12.762][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:02:12.763][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:02:12.768][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:02:12.769][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:02:12.770][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:12.771][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-03-14 16:02:12.773][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:02:12.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:02:12.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:12.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:12.777][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:02:12.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:02:12.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:12.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:12.781][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:12.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:12.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:12.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:12.786][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:12.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:12.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:12.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:12.790][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:12.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:12.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:12.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:12.794][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:12.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:12.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:12.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:12.799][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:12.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:12.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:12.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:12.803][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:12.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:12.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:12.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:12.807][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:12.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:12.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:12.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:12.811][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:12.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:12.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:12.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:12.815][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:12.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:12.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:12.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:12.819][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:12.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:12.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:12.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:12.823][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:12.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:12.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:12.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:12.827][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:12.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:12.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:12.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:12.831][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:12.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:12.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:12.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:12.839][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:12.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:12.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:12.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:12.843][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:12.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:12.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:12.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:12.847][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:12.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:12.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:12.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-03-14 16:02:12.851][self$createEntryFromContent] Accession numbers: NA, NA, NA.
biodb.DEBUG[2026-03-14 16:02:12.852][self$createEntryFromContent] Found 3 entry/ies without an accession number. Set it/them to NULL.
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-03-14 16:02:12.987][biodb::testThat]
biodb.INFO [2026-03-14 16:02:12.988][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2026-03-14 16:02:12.989][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-14 16:02:12.990][biodb::testThat]
biodb.TRACE[2026-03-14 16:02:12.993][ef$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:02:12.994][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:02:12.995][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:12.996][ef$get] fields variable is a list.
biodb.DEBUG[2026-03-14 16:02:12.998][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-03-14 16:02:13.251][biodb::testThat]
biodb.INFO [2026-03-14 16:02:13.252][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2026-03-14 16:02:13.253][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-14 16:02:13.254][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-03-14 16:02:13.512][biodb::testThat]
biodb.INFO [2026-03-14 16:02:13.513][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2026-03-14 16:02:13.514][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-14 16:02:13.515][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-03-14 16:02:13.611][biodb::testThat]
biodb.INFO [2026-03-14 16:02:13.613][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2026-03-14 16:02:13.614][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-14 16:02:13.615][biodb::testThat]
biodb.INFO [2026-03-14 16:02:13.625][biodb::testThat]
biodb.INFO [2026-03-14 16:02:13.626][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2026-03-14 16:02:13.627][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-14 16:02:13.628][biodb::testThat]
biodb.INFO [2026-03-14 16:02:13.636][biodb::testThat]
biodb.INFO [2026-03-14 16:02:13.637][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2026-03-14 16:02:13.638][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-14 16:02:13.639][biodb::testThat]
biodb.DEBUG[2026-03-14 16:02:13.643][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
sched.TRACE[2026-03-14 16:02:14.150][try_get_rcurl_content] Using RCurl package for sending request (https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440).
biodb.INFO [2026-03-14 16:02:14.513][biodb::testThat]
biodb.INFO [2026-03-14 16:02:14.516][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2026-03-14 16:02:14.519][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-14 16:02:14.521][biodb::testThat]
biodb.TRACE[2026-03-14 16:02:14.557][ef$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:02:14.559][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:02:14.560][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:14.561][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:14.563][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:02:14.564][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:02:14.565][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:14.567][ef$get] fields variable is a list.
biodb.INFO [2026-03-14 16:02:14.569][biodb::testThat]
biodb.INFO [2026-03-14 16:02:14.570][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2026-03-14 16:02:14.571][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-14 16:02:14.572][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-03-14 16:02:14.696][biodb::testThat]
biodb.INFO [2026-03-14 16:02:14.699][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2026-03-14 16:02:14.700][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-14 16:02:14.701][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-03-14 16:02:14.769][biodb::testThat]
biodb.INFO [2026-03-14 16:02:14.770][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2026-03-14 16:02:14.771][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-14 16:02:14.772][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-03-14 16:02:14.815][biodb::testThat]
biodb.INFO [2026-03-14 16:02:14.816][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2026-03-14 16:02:14.817][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-14 16:02:14.818][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.TRACE[2026-03-14 16:02:14.862][ef$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:02:14.864][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:02:14.865][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:14.866][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:14.867][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:02:14.868][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:02:14.869][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:14.870][ef$get] fields variable is a list.
biodb.INFO [2026-03-14 16:02:14.872][biodb::testThat]
biodb.INFO [2026-03-14 16:02:14.873][biodb::testThat] Running test function  test.annotateMzValues_real_values  (" annotateMzValues() works correctly with real values. ").
biodb.INFO [2026-03-14 16:02:14.874][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-14 16:02:14.875][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-03-14 16:02:14.919][biodb::testThat]
biodb.INFO [2026-03-14 16:02:14.920][biodb::testThat] Running test function  test_annotateMzValues_additional_fields  (" Additional fields are accepted in annotateMzValues() ").
biodb.INFO [2026-03-14 16:02:14.921][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-14 16:02:14.922][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-03-14 16:02:14.965][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2026-03-14 16:02:14.966][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2026-03-14 16:02:14.967][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2026-03-14 16:02:14.968][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:02:14.969][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:02:14.970][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:02:14.971][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:02:14.972][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:14.973][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".
[ FAIL 14 | WARN 0 | SKIP 1 | PASS 220 ]

══ Skipped tests (1) ═══════════════════════════════════════════════════════════
• empty test (1):

══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test_long_100_generic.R:17:1'): RT unit is defined when there is an RT value. ──
Error in `eval_bare(expr, quo_get_env(quo))`: attempt to apply non-function
Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(conn = `<ChebiCnn>`, opt = `<named list>`)
 3.   └─testthat::expect_true(...)
 4.     └─testthat::quasi_label(enquo(object), label)
 5.       └─rlang::eval_bare(expr, quo_get_env(quo))
── Failure ('test_long_100_generic.R:17:1'): We can search for an entry by searchable field ──
Expected `!is.null(entry)` to be TRUE.
Differences:
`actual`:   FALSE
`expected`: TRUE 

Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(conn = `<ChebiCnn>`, opt = `<named list>`)
 3.   └─testthat::expect_true(!is.null(entry))
── Error ('test_long_100_generic.R:17:1'): We can search for an entry by searchable field ──
Error in `entry$getFieldValue(f)`: attempt to apply non-function
Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(conn = `<ChebiCnn>`, opt = `<named list>`)
── Failure ('test_long_100_generic.R:17:1'): We can search for an entry by name. ──
Expected `!is.null(entry)` to be TRUE.
Differences:
`actual`:   FALSE
`expected`: TRUE 

Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(conn = `<ChebiCnn>`, opt = `<named list>`)
 3.   └─testthat::expect_true(!is.null(entry))
── Error ('test_long_100_generic.R:17:1'): We can search for an entry by name. ──
Error in `entry$getFieldValue("name")`: attempt to apply non-function
Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(conn = `<ChebiCnn>`, opt = `<named list>`)
── Failure ('test_long_100_generic.R:17:1'): We can load an entry from the database. ──
Expected `any(vapply(entries, is.null, FUN.VALUE = TRUE))` to be FALSE.
Differences:
`actual`:   TRUE 
`expected`: FALSE

Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(conn = `<ChebiCnn>`, opt = `<named list>`)
 3.   └─opt$refEntries$getRealEntry(id)
 4.     └─self$getRealEntries(ids = id)
 5.       └─testthat::expect_false(any(vapply(entries, is.null, FUN.VALUE = TRUE)))
── Failure ('test_long_100_generic.R:17:1'): We can load an entry from the database. ──
Expected `e` to inherit from "character".
Actual inheritance: "NULL"
Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(conn = `<ChebiCnn>`, opt = `<named list>`)
 3.   └─testthat::expect_is(e, "BiodbEntry")
── Failure ('test_long_100_generic.R:17:1'): We can search for a compound ──────
Expected `!is.null(entry)` to be TRUE.
Differences:
`actual`:   FALSE
`expected`: TRUE 

Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(db = `<ChebiCnn>`, opt = `<named list>`)
 3.   └─testthat::expect_true(!is.null(entry))
── Error ('test_long_100_generic.R:17:1'): We can search for a compound ────────
Error in `entry$getFieldValue("name")`: attempt to apply non-function
Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(db = `<ChebiCnn>`, opt = `<named list>`)
── Error ('test_long_100_generic.R:17:1'): annotateMzValues() accepts a single vector. ──
Error in `e$hasField(mf)`: attempt to apply non-function
Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(conn = `<ChebiCnn>`, opt = `<named list>`)
 3.   └─base::vapply(entries, function(e) e$hasField(mf), FUN.VALUE = TRUE)
 4.     └─biodb (local) FUN(X[[i]], ...)
── Error ('test_long_100_generic.R:17:1'): ppm tolerance works in annotateMzValues() ──
Error in `e$hasField(mf)`: attempt to apply non-function
Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(conn = `<ChebiCnn>`, opt = `<named list>`)
 3.   └─base::vapply(entries, function(e) e$hasField(mf), FUN.VALUE = TRUE)
 4.     └─biodb (local) FUN(X[[i]], ...)
── Error ('test_long_100_generic.R:17:1'): Input data frame is not modified by annotateMzValues() ──
Error in `e$hasField(mf)`: attempt to apply non-function
Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(conn = `<ChebiCnn>`, opt = `<named list>`)
 3.   └─base::vapply(entries, function(e) e$hasField(mf), FUN.VALUE = TRUE)
 4.     └─biodb (local) FUN(X[[i]], ...)
── Error ('test_long_100_generic.R:17:1'): annotateMzValues() works correctly with real values. ──
Error in `e$hasField(mf)`: attempt to apply non-function
Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(conn = `<ChebiCnn>`, opt = `<named list>`)
 3.   └─base::vapply(entries, function(e) e$hasField(mf), FUN.VALUE = TRUE)
 4.     └─biodb (local) FUN(X[[i]], ...)
── Error ('test_long_100_generic.R:17:1'): Additional fields are accepted in annotateMzValues() ──
Error in `e$hasField(mf)`: attempt to apply non-function
Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(conn = `<ChebiCnn>`, opt = `<named list>`)
 3.   └─base::vapply(entries, function(e) e$hasField(mf), FUN.VALUE = TRUE)
 4.     └─biodb (local) FUN(X[[i]], ...)

[ FAIL 14 | WARN 0 | SKIP 1 | PASS 220 ]
Error:
! Test failures.
Execution halted

'R CMD check' output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD check --test-dir=longtests --no-stop-on-test-error --no-codoc --no-examples --no-manual --ignore-vignettes --check-subdirs=no biodbChebi_1.17.1.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.23-bioc-longtests/meat/biodbChebi.Rcheck’
* using R Under development (unstable) (2026-03-05 r89546)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
    GNU Fortran (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
* running under: Ubuntu 24.04.4 LTS
* using session charset: UTF-8
* current time: 2026-03-14 20:01:06 UTC
* using options ‘--no-codoc --no-examples --no-manual --ignore-vignettes --no-stop-on-test-error’
* checking for file ‘biodbChebi/DESCRIPTION’ ... OK
* this is package ‘biodbChebi’ version ‘1.17.1’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘biodbChebi’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking loading without being on the library search path ... OK
* checking whether startup messages can be suppressed ... 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 ... SKIPPED
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking files in ‘vignettes’ ... SKIPPED
* checking examples ... SKIPPED
* checking for unstated dependencies in ‘longtests’ ... OK
* checking tests in ‘longtests’ ...
  Running ‘testthat.R’
 ERROR
Running the tests in ‘longtests/testthat.R’ failed.
Last 13 lines of output:
   3.   └─base::vapply(entries, function(e) e$hasField(mf), FUN.VALUE = TRUE)
   4.     └─biodb (local) FUN(X[[i]], ...)
  ── Error ('test_long_100_generic.R:17:1'): Additional fields are accepted in annotateMzValues() ──
  Error in `e$hasField(mf)`: attempt to apply non-function
  Backtrace:
      ▆
   1. ├─base::do.call(fct, params)
   2. └─biodb (local) `<fn>`(conn = `<ChebiCnn>`, opt = `<named list>`)
   3.   └─base::vapply(entries, function(e) e$hasField(mf), FUN.VALUE = TRUE)
   4.     └─biodb (local) FUN(X[[i]], ...)
  
  [ FAIL 14 | WARN 0 | SKIP 1 | PASS 220 ]
  Error:
  ! Test failures.
  Execution halted
* DONE

Status: 1 ERROR
See
  ‘/home/biocbuild/bbs-3.23-bioc-longtests/meat/biodbChebi.Rcheck/00check.log’
for details.

Installation output

biodbChebi.Rcheck/00install.out

* installing *source* package ‘biodbChebi’ ...
** this is package ‘biodbChebi’ version ‘1.17.1’
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
Warning in fun(libname, pkgname) :
  Package 'biodbChebi' is deprecated and will be removed from
  Bioconductor version 3.24
** testing if installed package can be loaded from final location
Warning in fun(libname, pkgname) :
  Package 'biodbChebi' is deprecated and will be removed from
  Bioconductor version 3.24
** testing if installed package keeps a record of temporary installation path
* DONE (biodbChebi)