Sean Davis
| Snapshot Date: 2026-05-07 13:40 -0400 (Thu, 07 May 2026) |
| git_url: https://git.bioconductor.org/packages/GEOquery |
| git_branch: RELEASE_3_23 |
| git_last_commit: 8b846af |
| git_last_commit_date: 2026-04-28 08:31:32 -0400 (Tue, 28 Apr 2026) |
| Back to Multiple platform build/check report for BioC 3.23: simplified long |
|
This page was generated on 2026-05-08 11:34 -0400 (Fri, 08 May 2026).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.4 LTS) | x86_64 | 4.6.0 RC (2026-04-17 r89917) -- "Because it was There" | 4992 |
| kjohnson3 | macOS 13.7.7 Ventura | arm64 | 4.6.0 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 884/2418 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| GEOquery 2.80.0 (landing page) Sean Davis
| nebbiolo1 | Linux (Ubuntu 24.04.4 LTS) / x86_64 | OK | OK | OK | | ||||||||
| kjohnson3 | macOS 13.7.7 Ventura / arm64 | OK | ERROR | skipped | skipped | |||||||||
| See other builds for GEOquery in R Universe. | ||||||||||||||
|
To the developers/maintainers of the GEOquery package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/GEOquery.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. |
| Package: GEOquery |
| Version: 2.80.0 |
| Command: /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data GEOquery |
| StartedAt: 2026-05-07 15:59:33 -0400 (Thu, 07 May 2026) |
| EndedAt: 2026-05-07 15:59:46 -0400 (Thu, 07 May 2026) |
| EllapsedTime: 13.2 seconds |
| RetCode: 1 |
| Status: ERROR |
| PackageFile: None |
| PackageFileSize: NA |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data GEOquery ### ############################################################################## ############################################################################## * checking for file ‘GEOquery/DESCRIPTION’ ... OK * preparing ‘GEOquery’: * checking DESCRIPTION meta-information ... OK * installing the package (it is needed to build vignettes) * creating vignettes ... ERROR --- re-building ‘GEOquery.qmd’ using html [31mError in strsplit(info, "\n", useBytes = TRUE)[[1]] : subscript out of bounds Calls: <Anonymous> -> find_pandoc -> lapply -> FUN -> get_pandoc_version Execution halted [39mError: processing vignette 'GEOquery.qmd' failed with diagnostics: ! Error running quarto CLI from R. Caused by error in `quarto_render()`: ✖ Error returned by quarto CLI. ----------------------------- [31mError in strsplit(info, "\n", useBytes = TRUE)[[1]] :[39m subscript out of bounds Calls: <Anonymous> -> find_pandoc -> lapply -> FUN -> get_pandoc_version Execution halted Caused by error in `processx::run()`: ! System command 'quarto' failed --- failed re-building ‘GEOquery.qmd’ --- re-building ‘single-cell.qmd’ using html [31mError in strsplit(info, "\n", useBytes = TRUE)[[1]] : subscript out of bounds Calls: <Anonymous> -> find_pandoc -> lapply -> FUN -> get_pandoc_version Execution halted [39mError: processing vignette 'single-cell.qmd' failed with diagnostics: ! Error running quarto CLI from R. Caused by error in `quarto_render()`: ✖ Error returned by quarto CLI. ----------------------------- [31mError in strsplit(info, "\n", useBytes = TRUE)[[1]] :[39m subscript out of bounds Calls: <Anonymous> -> find_pandoc -> lapply -> FUN -> get_pandoc_version Execution halted Caused by error in `processx::run()`: ! System command 'quarto' failed --- failed re-building ‘single-cell.qmd’ SUMMARY: processing the following files failed: ‘GEOquery.qmd’ ‘single-cell.qmd’ Error: Vignette re-building failed. Execution halted