| Back to Multiple platform build/check report for BioC 3.23: simplified long |
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This page was generated on 2026-03-12 11:34 -0400 (Thu, 12 Mar 2026).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | R Under development (unstable) (2026-03-05 r89546) -- "Unsuffered Consequences" | 4806 |
| kjohnson3 | macOS 13.7.7 Ventura | arm64 | R Under development (unstable) (2026-03-01 r89506) -- "Unsuffered Consequences" | 4049 |
| 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 851/2360 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| GenomicFiles 1.47.0 (landing page) Bioconductor Package Maintainer
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | OK | ERROR | |||||||||
| kjohnson3 | macOS 13.7.7 Ventura / arm64 | OK | ERROR | skipped | skipped | |||||||||
| See other builds for GenomicFiles in R Universe. | ||||||||||||||
|
To the developers/maintainers of the GenomicFiles package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/GenomicFiles.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: GenomicFiles |
| Version: 1.47.0 |
| Command: /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data GenomicFiles |
| StartedAt: 2026-03-11 16:08:01 -0400 (Wed, 11 Mar 2026) |
| EndedAt: 2026-03-11 16:08:25 -0400 (Wed, 11 Mar 2026) |
| EllapsedTime: 24.3 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 GenomicFiles
###
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* checking for file ‘GenomicFiles/DESCRIPTION’ ... OK
* preparing ‘GenomicFiles’:
* checking DESCRIPTION meta-information ... OK
* installing the package (it is needed to build vignettes)
* creating vignettes ... ERROR
--- re-building ‘GenomicFiles.Rmd’ using rmarkdown
Quitting from GenomicFiles.Rmd:240-244 [pileups-reduceByRange]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error:
! BiocParallel errors
4 remote errors, element index: 1, 2, 3, 4
0 unevaluated and other errors
first remote error:
Error in loadNamespace(x): there is no package called 'deepSNV'
---
Backtrace:
▆
1. ├─GenomicFiles::reduceByRange(gr, fls, MAP, REDUCE)
2. └─GenomicFiles::reduceByRange(gr, fls, MAP, REDUCE)
3. └─GenomicFiles (local) .local(ranges, files, MAP, REDUCE, ..., iterate = iterate, init = init)
4. └─GenomicFiles:::.reduceByRange(...)
5. ├─BiocParallel::bplapply(...)
6. └─BiocParallel::bplapply(...)
7. ├─BiocParallel::bplapply(...)
8. └─BiocParallel::bplapply(...)
9. └─BiocParallel:::.bpinit(...)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'GenomicFiles.Rmd' failed with diagnostics:
BiocParallel errors
4 remote errors, element index: 1, 2, 3, 4
0 unevaluated and other errors
first remote error:
Error in loadNamespace(x): there is no package called 'deepSNV'
--- failed re-building ‘GenomicFiles.Rmd’
SUMMARY: processing the following file failed:
‘GenomicFiles.Rmd’
Error: Vignette re-building failed.
Execution halted