| Back to Build/check report for BioC 3.24: simplified long |
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This page was generated on 2026-04-29 10:00 -0400 (Wed, 29 Apr 2026).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 24.04.4 LTS) | x86_64 | 4.6.0 RC (2026-04-17 r89917) -- "Because it was There" | 4843 |
| 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 131/2366 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| bambu 3.15.0 (landing page) Ying Chen
| nebbiolo2 | Linux (Ubuntu 24.04.4 LTS) / x86_64 | OK | ERROR | skipped | |||||||||
| See other builds for bambu in R Universe. | ||||||||||||||
|
To the developers/maintainers of the bambu package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/bambu.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: bambu |
| Version: 3.15.0 |
| Command: /home/biocbuild/bbs-3.24-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data --md5 bambu |
| StartedAt: 2026-04-28 17:19:30 -0400 (Tue, 28 Apr 2026) |
| EndedAt: 2026-04-28 17:20:44 -0400 (Tue, 28 Apr 2026) |
| EllapsedTime: 74.1 seconds |
| RetCode: 1 |
| Status: ERROR |
| PackageFile: None |
| PackageFileSize: NA |
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### Running command:
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### /home/biocbuild/bbs-3.24-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data --md5 bambu
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* checking for file ‘bambu/DESCRIPTION’ ... OK
* preparing ‘bambu’:
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package (it is needed to build vignettes)
* creating vignettes ... ERROR
--- re-building ‘bambu.Rmd’ using rmarkdown
Quitting from bambu.Rmd:56-69 [unnamed-chunk-3]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `h()`:
! error in evaluating the argument 'table' in selecting a method for function '%in%': unknown Bioconductor version '3.24'; see https://bioconductor.org/install
---
Backtrace:
▆
1. ├─bambu::bambu(...)
2. │ └─bambu:::bambu.processReads(...)
3. │ └─bambu:::checkInputSequence(genomeSequence)
4. │ ├─genomeSequence %in% BSgenome::available.genomes()
5. │ └─BSgenome::available.genomes()
6. │ └─BSgenome:::get_data_annotation_contrib_url(type)
7. │ ├─utils::contrib.url(BiocManager::repositories()["BioCann"], type = type)
8. │ └─BiocManager::repositories()
9. │ └─BiocManager:::.version_validate(version)
10. │ ├─base::ifelse(.is_CRAN_check(), .message(txt), .stop(txt))
11. │ └─BiocManager:::.stop(txt)
12. │ └─base::stop(.msg(...), call. = call.)
13. └─base::.handleSimpleError(...)
14. └─base (local) h(simpleError(msg, call))
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'bambu.Rmd' failed with diagnostics:
error in evaluating the argument 'table' in selecting a method for function '%in%': unknown Bioconductor version '3.24'; see https://bioconductor.org/install
--- failed re-building ‘bambu.Rmd’
SUMMARY: processing the following file failed:
‘bambu.Rmd’
Error: Vignette re-building failed.
Execution halted