| Back to Build/check report for BioC 3.23: simplified long |
|
This page was generated on 2025-10-31 08:34 -0400 (Fri, 31 Oct 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | R Under development (unstable) (2025-10-20 r88955) -- "Unsuffered Consequences" | 4428 |
| 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 902/2321 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| GOstats 2.77.0 (landing page) Bioconductor Package Maintainer
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | ERROR | skipped | |||||||||
|
To the developers/maintainers of the GOstats package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/GOstats.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: GOstats |
| Version: 2.77.0 |
| Command: /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data GOstats |
| StartedAt: 2025-10-30 17:22:30 -0400 (Thu, 30 Oct 2025) |
| EndedAt: 2025-10-30 17:24:33 -0400 (Thu, 30 Oct 2025) |
| EllapsedTime: 123.1 seconds |
| RetCode: 1 |
| Status: ERROR |
| PackageFile: None |
| PackageFileSize: NA |
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### Running command:
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### /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data GOstats
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* checking for file ‘GOstats/DESCRIPTION’ ... OK
* preparing ‘GOstats’:
* checking DESCRIPTION meta-information ... OK
* installing the package (it is needed to build vignettes)
* creating vignettes ... ERROR
--- re-building ‘GOstatsForUnsupportedOrganisms.Rmd’ using rmarkdown
Warning: call dbDisconnect() when finished working with a connection
[WARNING] Could not parse YAML metadata at line 19 column 1: :2:68: Unexpected '
'
[WARNING] This document format requires a nonempty <title> element.
Please specify either 'title' or 'pagetitle' in the metadata,
e.g. by using --metadata pagetitle="..." on the command line.
Falling back to 'GOstatsForUnsupportedOrganisms.knit'
--- finished re-building ‘GOstatsForUnsupportedOrganisms.Rmd’
--- re-building ‘GOstatsHyperG.Rmd’ using rmarkdown
Quitting from GOstatsHyperG.Rmd:46-56 [Setup]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `library()`:
! there is no package called 'hgu95av2.db'
---
Backtrace:
▆
1. └─base::library("hgu95av2.db")
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'GOstatsHyperG.Rmd' failed with diagnostics:
there is no package called 'hgu95av2.db'
--- failed re-building ‘GOstatsHyperG.Rmd’
--- re-building ‘GOvis.Rmd’ using rmarkdown
Quitting from GOvis.Rmd:39-50 [Setup]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `library()`:
! there is no package called 'hgu95av2.db'
---
Backtrace:
▆
1. └─base::library("hgu95av2.db")
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'GOvis.Rmd' failed with diagnostics:
there is no package called 'hgu95av2.db'
--- failed re-building ‘GOvis.Rmd’
SUMMARY: processing the following files failed:
‘GOstatsHyperG.Rmd’ ‘GOvis.Rmd’
Error: Vignette re-building failed.
Execution halted