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This page was generated on 2025-10-27 12:45 -0400 (Mon, 27 Oct 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| kjohnson3 | macOS 13.7.7 Ventura | arm64 | 4.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" | 4637 |
| 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 1603/2361 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| pipeFrame 1.25.1 (landing page) Zheng Wei
| kjohnson3 | macOS 13.7.7 Ventura / arm64 | OK | ERROR | skipped | skipped | ||||||||
|
To the developers/maintainers of the pipeFrame package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/pipeFrame.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: pipeFrame |
| Version: 1.25.1 |
| Command: /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data pipeFrame |
| StartedAt: 2025-10-26 17:32:43 -0400 (Sun, 26 Oct 2025) |
| EndedAt: 2025-10-26 17:42:20 -0400 (Sun, 26 Oct 2025) |
| EllapsedTime: 577.3 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 pipeFrame
###
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* checking for file ‘pipeFrame/DESCRIPTION’ ... OK
* preparing ‘pipeFrame’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘pipeFrame.Rmd’ using rmarkdown
Quitting from pipeFrame.Rmd:762-765 [unnamed-chunk-31]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error:
! Bioconductor version cannot be validated; no internet connection? See
#troubleshooting section in vignette
---
Backtrace:
▆
1. └─global examplePipe(...)
2. └─pipeFrame::setGenome(genome = genome)
3. └─base::lapply(checkAndInstall, function(cai) cai())
4. └─pipeFrame (local) FUN(X[[i]], ...)
5. └─global cai()
6. └─pipeFrame::runWithFinishCheck(...)
7. └─global func(NULL)
8. └─BSgenome::available.genomes()
9. └─BSgenome:::get_data_annotation_contrib_url(type)
10. ├─utils::contrib.url(BiocManager::repositories()["BioCann"], type = type)
11. └─BiocManager::repositories()
12. └─BiocManager:::.version_validate(version)
13. ├─base::ifelse(.is_CRAN_check(), .message(txt), .stop(txt))
14. └─BiocManager:::.stop(txt)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'pipeFrame.Rmd' failed with diagnostics:
Bioconductor version cannot be validated; no internet connection? See
#troubleshooting section in vignette
--- failed re-building ‘pipeFrame.Rmd’
SUMMARY: processing the following file failed:
‘pipeFrame.Rmd’
Error: Vignette re-building failed.
Execution halted