Feargal Ryan
| Snapshot Date: 2026-01-21 13:40 -0500 (Wed, 21 Jan 2026) |
| git_url: https://git.bioconductor.org/packages/TaxSEA |
| git_branch: devel |
| git_last_commit: 4a2f425 |
| git_last_commit_date: 2026-01-14 00:09:16 -0500 (Wed, 14 Jan 2026) |
| Back to Multiple platform build/check report for BioC 3.23: simplified long |
|
This page was generated on 2026-01-22 11:35 -0500 (Thu, 22 Jan 2026).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | R Under development (unstable) (2026-01-15 r89304) -- "Unsuffered Consequences" | 4808 |
| kjohnson3 | macOS 13.7.7 Ventura | arm64 | R Under development (unstable) (2026-01-15 r89304) -- "Unsuffered Consequences" | 4542 |
| 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 2174/2345 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| TaxSEA 1.3.1 (landing page) Feargal Ryan
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | OK | WARNINGS | | ||||||||
| kjohnson3 | macOS 13.7.7 Ventura / arm64 | OK | ERROR | skipped | skipped | |||||||||
|
To the developers/maintainers of the TaxSEA package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/TaxSEA.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: TaxSEA |
| Version: 1.3.1 |
| Command: /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data TaxSEA |
| StartedAt: 2026-01-21 17:50:43 -0500 (Wed, 21 Jan 2026) |
| EndedAt: 2026-01-21 17:51:17 -0500 (Wed, 21 Jan 2026) |
| EllapsedTime: 34.4 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 TaxSEA
###
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* checking for file ‘TaxSEA/DESCRIPTION’ ... OK
* preparing ‘TaxSEA’:
* checking DESCRIPTION meta-information ... OK
* installing the package (it is needed to build vignettes)
* creating vignettes ... ERROR
--- re-building ‘FAQs.Rmd’ using rmarkdown
Warning: The vignette title specified in \VignetteIndexEntry{} is different from the title in the YAML metadata. The former is "frequently asked questions", and the latter is "Frequently Asked Questions". If that is intentional, you may set options(rmarkdown.html_vignette.check_title = FALSE) to suppress this check.
--- finished re-building ‘FAQs.Rmd’
--- re-building ‘ORA_vs_ES.Rmd’ using rmarkdown
Warning: The vignette title specified in \VignetteIndexEntry{} is different from the title in the YAML metadata. The former is "analysis_types", and the latter is "Analysis types". If that is intentional, you may set options(rmarkdown.html_vignette.check_title = FALSE) to suppress this check.
--- finished re-building ‘ORA_vs_ES.Rmd’
--- re-building ‘TaxSEA.Rmd’ using rmarkdown
Quitting from TaxSEA.Rmd:138-151 [example2]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error:
! download failed; see warnings()
---
Backtrace:
▆
1. └─TaxSEA::TaxSEA(taxon_ranks = TaxSEA_test_data)
2. └─TaxSEA:::taxsea_prepare(...)
3. └─bugsigdbr::importBugSigDB()
4. └─bugsigdbr:::.getResourceFromCache(rname, FUN = .getdf)
5. ├─base::suppressWarnings(...)
6. │ └─base::withCallingHandlers(...)
7. ├─BiocFileCache::bfcdownload(bfc, rid, ask = FALSE, ...)
8. └─BiocFileCache::bfcdownload(bfc, rid, ask = FALSE, ...)
9. └─BiocFileCache:::.util_download_and_rename(...)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'TaxSEA.Rmd' failed with diagnostics:
download failed; see warnings()
--- failed re-building ‘TaxSEA.Rmd’
--- re-building ‘Taxonomic_aggregation.Rmd’ using rmarkdown
Warning: The vignette title specified in \VignetteIndexEntry{} is different from the title in the YAML metadata. The former is "taxonomic_aggregation", and the latter is "Testing higher taxonomic levels without collapsing your data". If that is intentional, you may set options(rmarkdown.html_vignette.check_title = FALSE) to suppress this check.
--- finished re-building ‘Taxonomic_aggregation.Rmd’
--- re-building ‘why-taxon-set-enrichment.Rmd’ using rmarkdown
--- finished re-building ‘why-taxon-set-enrichment.Rmd’
SUMMARY: processing the following file failed:
‘TaxSEA.Rmd’
Error: Vignette re-building failed.
Execution halted