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This page was generated on 2026-01-03 11:35 -0500 (Sat, 03 Jan 2026).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | R Under development (unstable) (2025-12-22 r89219) -- "Unsuffered Consequences" | 4809 |
| kjohnson3 | macOS 13.7.7 Ventura | arm64 | R Under development (unstable) (2025-11-04 r88984) -- "Unsuffered Consequences" | 4593 |
| 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 1319/2332 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| mitology 1.3.0 (landing page) Stefania Pirrotta
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | ERROR | skipped | |||||||||
| kjohnson3 | macOS 13.7.7 Ventura / arm64 | OK | ERROR | skipped | skipped | |||||||||
|
To the developers/maintainers of the mitology package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/mitology.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: mitology |
| Version: 1.3.0 |
| Command: /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data mitology |
| StartedAt: 2026-01-01 16:58:58 -0500 (Thu, 01 Jan 2026) |
| EndedAt: 2026-01-01 16:59:44 -0500 (Thu, 01 Jan 2026) |
| EllapsedTime: 46.5 seconds |
| RetCode: 1 |
| Status: ERROR |
| PackageFile: None |
| PackageFileSize: NA |
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### Running command:
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### /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data mitology
###
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* checking for file ‘mitology/DESCRIPTION’ ... OK
* preparing ‘mitology’:
* checking DESCRIPTION meta-information ... OK
* installing the package (it is needed to build vignettes)
* creating vignettes ... ERROR
--- re-building ‘mitology.Rmd’ using rmarkdown
Quitting from mitology.Rmd:136-147 [unnamed-chunk-10]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `[.data.frame`:
! undefined columns selected
---
Backtrace:
▆
1. └─mitology::gseaMito(genes = geneslFC, database = "MitoCarta")
2. └─clusterProfiler::GSEA(geneList = genes, TERM2GENE = DB_df)
3. └─enrichit::gsea_gson(...)
4. ├─gsea_res[, c(expected_cols, other_cols)]
5. └─base::`[.data.frame`(gsea_res, , c(expected_cols, other_cols))
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'mitology.Rmd' failed with diagnostics:
undefined columns selected
--- failed re-building ‘mitology.Rmd’
SUMMARY: processing the following file failed:
‘mitology.Rmd’
Error: Vignette re-building failed.
Execution halted