| Back to Build/check report for BioC 3.23: simplified long |
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This page was generated on 2026-02-04 11:32 -0500 (Wed, 04 Feb 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" | 4852 |
| 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 716/2347 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| factR 1.13.0 (landing page) Fursham Hamid
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | ERROR | skipped | |||||||||
| See other builds for factR in R Universe. | ||||||||||||||
|
To the developers/maintainers of the factR package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/factR.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: factR |
| Version: 1.13.0 |
| Command: /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data factR |
| StartedAt: 2026-02-03 17:36:04 -0500 (Tue, 03 Feb 2026) |
| EndedAt: 2026-02-03 17:36:30 -0500 (Tue, 03 Feb 2026) |
| EllapsedTime: 25.1 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 factR
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* checking for file ‘factR/DESCRIPTION’ ... OK
* preparing ‘factR’:
* checking DESCRIPTION meta-information ... OK
* installing the package (it is needed to build vignettes)
* creating vignettes ... ERROR
--- re-building ‘factR.Rmd’ using rmarkdown
Quitting from factR.Rmd:167-169 [plottranscripts]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error:
! error in evaluating the argument 'args' in selecting a method for function 'do.call': `arrange_()` was deprecated in dplyr 0.7.0 and is now defunct.
ℹ Please use `arrange()` instead.
ℹ See vignette('programming') for more help
---
Backtrace:
▆
1. ├─factR::viewTranscripts(custom.gtf, "Zfr")
2. │ ├─BiocGenerics::do.call(...)
3. │ └─base::lapply(...)
4. │ └─factR (local) FUN(X[[i]], ...)
5. │ ├─base::suppressWarnings(...)
6. │ │ └─base::withCallingHandlers(...)
7. │ └─wiggleplotr::plotTranscripts(...)
8. │ └─wiggleplotr:::plotTranscriptStructure(...)
9. │ └─... %>% dplyr::filter(row_number() == 1)
10. ├─dplyr::filter(., row_number() == 1)
11. ├─dplyr::arrange_(., "transcript_id", "start")
12. │ └─dplyr:::lazy_defunct("arrange")
13. │ └─lifecycle::deprecate_stop(...)
14. │ └─lifecycle:::deprecate_stop0(msg)
15. │ └─rlang::cnd_signal(...)
16. │ └─rlang:::signal_abort(cnd)
17. │ └─base::signalCondition(cnd)
18. └─base (local) `<fn>`(`<lfcycl__>`)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'factR.Rmd' failed with diagnostics:
error in evaluating the argument 'args' in selecting a method for function 'do.call': `arrange_()` was deprecated in dplyr 0.7.0 and is now defunct.
ℹ Please use `arrange()` instead.
ℹ See vignette('programming') for more help
--- failed re-building ‘factR.Rmd’
SUMMARY: processing the following file failed:
‘factR.Rmd’
Error: Vignette re-building failed.
Execution halted