Back to Multiple platform build/check report for BioC 3.23:   simplified   long
[A]BCDEFGHIJKLMNOPQRSTUVWXYZ

This page was generated on 2026-05-08 11:34 -0400 (Fri, 08 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" 4992
kjohnson3macOS 13.7.7 Venturaarm644.6.0 Patched (2026-04-24 r89963) -- "Because it was There" 4725
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 78/2418HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
AnnotationForge 1.54.0  (landing page)
Bioconductor Package Maintainer
Snapshot Date: 2026-05-07 13:40 -0400 (Thu, 07 May 2026)
git_url: https://git.bioconductor.org/packages/AnnotationForge
git_branch: RELEASE_3_23
git_last_commit: d0a6124
git_last_commit_date: 2026-04-28 08:36:38 -0400 (Tue, 28 Apr 2026)
nebbiolo1Linux (Ubuntu 24.04.4 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
kjohnson3macOS 13.7.7 Ventura / arm64  OK    ERROR  skippedskipped
See other builds for AnnotationForge in R Universe.

BUILD results for AnnotationForge on kjohnson3

To the developers/maintainers of the AnnotationForge package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/AnnotationForge.git to reflect on this report. See Troubleshooting Build Report for more information.
- Use the following Renviron settings to reproduce errors and warnings.
- If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information.

raw results


Summary

Package: AnnotationForge
Version: 1.54.0
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data AnnotationForge
StartedAt: 2026-05-07 15:40:11 -0400 (Thu, 07 May 2026)
EndedAt: 2026-05-07 15:40:37 -0400 (Thu, 07 May 2026)
EllapsedTime: 26.4 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data AnnotationForge
###
##############################################################################
##############################################################################


* checking for file ‘AnnotationForge/DESCRIPTION’ ... OK
* preparing ‘AnnotationForge’:
* checking DESCRIPTION meta-information ... OK
* installing the package (it is needed to build vignettes)
* creating vignettes ... ERROR
--- re-building ‘makeProbePackage.Rmd’ using rmarkdown
Error: processing vignette 'makeProbePackage.Rmd' failed with diagnostics:
subscript out of bounds
--- failed re-building ‘makeProbePackage.Rmd’

--- re-building ‘MakingNewAnnotationPackages.Rnw’ using knitr
trying URL 'http://rest.uniprot.org/uniprotkb/search?query=P13368%20OR%20Q6GZX4&format=xml'
Content type 'application/xml' length 79660 bytes (77 KB)
==================================================
downloaded 77 KB

--- finished re-building ‘MakingNewAnnotationPackages.Rnw’

--- re-building ‘MakingNewOrganismPackages.Rmd’ using knitr
--- finished re-building ‘MakingNewOrganismPackages.Rmd’

--- re-building ‘SQLForge.Rnw’ using knitr
Warning: call dbDisconnect() when finished working with a connection
--- finished re-building ‘SQLForge.Rnw’

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

Error: Vignette re-building failed.
Execution halted