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This page was generated on 2026-02-25 07:00 -0500 (Wed, 25 Feb 2026).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.3 LTS)x86_64R Under development (unstable) (2026-01-15 r89304) -- "Unsuffered Consequences" 4874
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: 2026-02-25 05:45 -0500 (Wed, 25 Feb 2026)
git_url: https://git.bioconductor.org/packages/BioMartGOGeneSets
git_branch: devel
git_last_commit: 56dc0d7
git_last_commit_date: 2026-01-30 04:19:36 -0500 (Fri, 30 Jan 2026)
nebbiolo1Linux (Ubuntu 24.04.3 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: 2026-02-25 06:01:40 -0500 (Wed, 25 Feb 2026)
EndedAt: 2026-02-25 06:03:37 -0500 (Wed, 25 Feb 2026)
EllapsedTime: 116.8 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

##############################################################################
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### Running command:
###
###   /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data BioMartGOGeneSets
###
##############################################################################
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* 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
--- finished re-building ‘biomart.Rmd’

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

Quitting from genesets.Rmd:102-106 [unnamed-chunk-11]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `download.file()`:
! cannot open URL 'https://ftp.ncbi.nih.gov/genomes/all/GCA/003/047/355//GCA_003047355.1_Nemo_v1/GCA_003047355.1_Nemo_v1_assembly_report.txt'
---
Backtrace:
    ▆
 1. └─BioMartGOGeneSets::getBioMartGenomeInfo("apercula_gene_ensembl")
 2.   └─BioMartGOGeneSets:::get_data(...)
 3.     └─utils::download.file(url, destfile = tmp, quiet = TRUE)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'genesets.Rmd' failed with diagnostics:
cannot open URL 'https://ftp.ncbi.nih.gov/genomes/all/GCA/003/047/355//GCA_003047355.1_Nemo_v1/GCA_003047355.1_Nemo_v1_assembly_report.txt'
--- failed 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:
  ‘genesets.Rmd’

Error: Vignette re-building failed.
Execution halted