Back to Build/check report for BioC 3.23 annotations
ABCDEFGHIJKLMN[O]PQRSTUVWXYZ

This page was generated on 2026-02-04 07:00 -0500 (Wed, 04 Feb 2026).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.3 LTS)x86_64R Under development (unstable) (2026-01-15 r89304) -- "Unsuffered Consequences" 4852
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 38/49HostnameOS / ArchINSTALLBUILDCHECK
org.Mxanthus.db 1.0.27  (landing page)
Eduardo Illueca Fernández
Snapshot Date: 2026-02-04 05:45 -0500 (Wed, 04 Feb 2026)
git_url: https://git.bioconductor.org/packages/org.Mxanthus.db
git_branch: devel
git_last_commit: a17100f
git_last_commit_date: 2020-01-20 09:44:36 -0500 (Mon, 20 Jan 2020)
nebbiolo1Linux (Ubuntu 24.04.3 LTS) / x86_64  OK    ERROR  skipped

BUILD results for org.Mxanthus.db on nebbiolo1

To the developers/maintainers of the org.Mxanthus.db 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: org.Mxanthus.db
Version: 1.0.27
Command: /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data org.Mxanthus.db
StartedAt: 2026-02-04 06:02:15 -0500 (Wed, 04 Feb 2026)
EndedAt: 2026-02-04 06:02:45 -0500 (Wed, 04 Feb 2026)
EllapsedTime: 30.2 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data org.Mxanthus.db
###
##############################################################################
##############################################################################


* checking for file ‘org.Mxanthus.db/DESCRIPTION’ ... OK
* preparing ‘org.Mxanthus.db’:
* checking DESCRIPTION meta-information ... OK
* installing the package (it is needed to build vignettes)
* creating vignettes ... ERROR
--- re-building ‘org.Mxanthus.db.Rmd’ using rmarkdown

Quitting from org.Mxanthus.db.Rmd:131-144 [13 ]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `clusterProfiler::bitr()`:
! 'toType' should be one of CHROMOSOME, END, EVIDENCE, EVIDENCEALL, GID, GO, GOALL, LOCUS_TAG, NAME, OLD_MXAN, ONTOLOGY, ONTOLOGYALL, PARENT, REFSEQ_PROTEIN, START, SYMBOL, UNIPROT.
---
Backtrace:
    ▆
 1. └─clusterProfiler::enrichGO(...)
 2.   └─clusterProfiler::bitr(...)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'org.Mxanthus.db.Rmd' failed with diagnostics:
'toType' should be one of CHROMOSOME, END, EVIDENCE, EVIDENCEALL, GID, GO, GOALL, LOCUS_TAG, NAME, OLD_MXAN, ONTOLOGY, ONTOLOGYALL, PARENT, REFSEQ_PROTEIN, START, SYMBOL, UNIPROT.
--- failed re-building ‘org.Mxanthus.db.Rmd’

SUMMARY: processing the following file failed:
  ‘org.Mxanthus.db.Rmd’

Error: Vignette re-building failed.
Execution halted