Back to Build/check report for BioC 3.23 annotations
A[B]CDEFGHIJKLMNOPQRSTUVWXYZ

This page was generated on 2026-05-20 07:00 -0400 (Wed, 20 May 2026).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.4 LTS)x86_644.6.0 RC (2026-04-17 r89917) -- "Because it was There" 4995
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 12/49HostnameOS / ArchINSTALLBUILDCHECK
BioMartGOGeneSets 0.99.12  (landing page)
Zuguang Gu
Snapshot Date: 2026-05-20 05:45 -0400 (Wed, 20 May 2026)
git_url: https://git.bioconductor.org/packages/BioMartGOGeneSets
git_branch: RELEASE_3_23
git_last_commit: 56dc0d7
git_last_commit_date: 2026-01-30 04:19:36 -0400 (Fri, 30 Jan 2026)
nebbiolo1Linux (Ubuntu 24.04.4 LTS) / x86_64  OK    ERROR  skipped

BUILD results for BioMartGOGeneSets on nebbiolo1

To the developers/maintainers of the BioMartGOGeneSets 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: BioMartGOGeneSets
Version: 0.99.12
Command: /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data BioMartGOGeneSets
StartedAt: 2026-05-20 06:01:33 -0400 (Wed, 20 May 2026)
EndedAt: 2026-05-20 06:02:18 -0400 (Wed, 20 May 2026)
EllapsedTime: 45.0 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 BioMartGOGeneSets
###
##############################################################################
##############################################################################


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

Quitting from biomart.Rmd:37-41 [unnamed-chunk-3]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `.chooseEnsemblMirror()`:
! Unable to query any Ensembl site
---
Backtrace:
    ▆
 1. └─biomaRt::useEnsembl(biomart = "genes")
 2.   └─biomaRt:::.chooseEnsemblMirror(mirror = mirror, http_config = http_config)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'biomart.Rmd' failed with diagnostics:
Unable to query any Ensembl site
--- failed re-building ‘biomart.Rmd’

--- re-building ‘genesets.Rmd’ using rmarkdown
--- finished re-building ‘genesets.Rmd’

--- re-building ‘supported_organisms.Rmd’ using rmarkdown
--- finished re-building ‘supported_organisms.Rmd’

--- re-building ‘version.Rmd’ using rmarkdown
--- finished re-building ‘version.Rmd’

SUMMARY: processing the following file failed:
  ‘biomart.Rmd’

Error: Vignette re-building failed.
Execution halted