Back to Multiple platform build/check report for BioC 3.22: simplified long |
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This page was generated on 2025-04-09 11:55 -0400 (Wed, 09 Apr 2025).
Hostname | OS | Arch (*) | R version | Installed pkgs |
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nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | 4.5.0 beta (2025-04-02 r88102) -- "How About a Twenty-Six" | 4737 |
palomino8 | Windows Server 2022 Datacenter | x64 | 4.5.0 RC (2025-04-03 r88103 ucrt) -- "How About a Twenty-Six" | 4524 |
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 1161/2335 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
Wubing Zhang
| nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | ERROR | skipped | |||||||||
palomino8 | Windows Server 2022 Datacenter / x64 | OK | ERROR | skipped | skipped | |||||||||
To the developers/maintainers of the MAGeCKFlute package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/MAGeCKFlute.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: MAGeCKFlute |
Version: 2.11.1 |
Command: /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data --md5 MAGeCKFlute |
StartedAt: 2025-04-08 17:57:59 -0400 (Tue, 08 Apr 2025) |
EndedAt: 2025-04-08 18:00:16 -0400 (Tue, 08 Apr 2025) |
EllapsedTime: 137.2 seconds |
RetCode: 1 |
Status: ERROR |
PackageFile: None |
PackageFileSize: NA |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data --md5 MAGeCKFlute ### ############################################################################## ############################################################################## * checking for file ‘MAGeCKFlute/DESCRIPTION’ ... OK * preparing ‘MAGeCKFlute’: * checking DESCRIPTION meta-information ... OK * installing the package to build vignettes * creating vignettes ... ERROR --- re-building ‘MAGeCKFlute.Rmd’ using rmarkdown Warning: ggrepel: 5 unlabeled data points (too many overlaps). Consider increasing max.overlaps Warning: ggrepel: 8 unlabeled data points (too many overlaps). Consider increasing max.overlaps Warning: ggrepel: 3 unlabeled data points (too many overlaps). Consider increasing max.overlaps Warning: ggrepel: 5 unlabeled data points (too many overlaps). Consider increasing max.overlaps Warning: ggrepel: 10 unlabeled data points (too many overlaps). Consider increasing max.overlaps Warning: ggrepel: 5 unlabeled data points (too many overlaps). Consider increasing max.overlaps --- finished re-building ‘MAGeCKFlute.Rmd’ --- re-building ‘MAGeCKFlute_enrichment.Rmd’ using rmarkdown Quitting from MAGeCKFlute_enrichment.Rmd:103-110 [enrichplot] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ <error/rlang_error> Error in `get()`: ! invalid first argument --- Backtrace: ▆ 1. ├─ggtangle::cnetplot(hgtRes1, 5) 2. └─enrichplot:::cnetplot.enrichResult(hgtRes1, 5) 3. ├─ggtangle::cnetplot(...) 4. └─ggtangle:::cnetplot.list(...) 5. ├─ggplot2::ggplot(g, layout = layout) 6. └─ggtangle:::ggplot.igraph(g, layout = layout) 7. └─ggtangle:::get_igraph_layout(layout) 8. └─yulab.utils::get_fun_from_pkg("igraph", layout) 9. └─utils::getFromNamespace(fun, pkg) 10. └─base::get(x, envir = ns, inherits = FALSE) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'MAGeCKFlute_enrichment.Rmd' failed with diagnostics: invalid first argument --- failed re-building ‘MAGeCKFlute_enrichment.Rmd’ SUMMARY: processing the following file failed: ‘MAGeCKFlute_enrichment.Rmd’ Error: Vignette re-building failed. Execution halted