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This page was generated on 2025-10-16 11:39 -0400 (Thu, 16 Oct 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.3 LTS)x86_644.5.1 (2025-06-13) -- "Great Square Root" 4833
merida1macOS 12.7.6 Montereyx86_644.5.1 RC (2025-06-05 r88288) -- "Great Square Root" 4614
kjohnson1macOS 13.7.5 Venturaarm644.5.1 Patched (2025-06-14 r88325) -- "Great Square Root" 4555
kunpeng2Linux (openEuler 24.03 LTS)aarch64R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences" 4586
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 1164/2341HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
MAGeCKFlute 2.12.0  (landing page)
Wubing Zhang
Snapshot Date: 2025-10-13 13:40 -0400 (Mon, 13 Oct 2025)
git_url: https://git.bioconductor.org/packages/MAGeCKFlute
git_branch: RELEASE_3_21
git_last_commit: 40772ea
git_last_commit_date: 2025-04-15 11:16:38 -0400 (Tue, 15 Apr 2025)
nebbiolo1Linux (Ubuntu 24.04.3 LTS) / x86_64  OK    ERROR  skipped
merida1macOS 12.7.6 Monterey / x86_64  OK    ERROR  skippedskipped
kjohnson1macOS 13.7.5 Ventura / arm64  OK    ERROR  skippedskipped
kunpeng2Linux (openEuler 24.03 LTS) / aarch64  OK    ERROR  skipped

BUILD results for MAGeCKFlute on merida1

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.

raw results


Summary

Package: MAGeCKFlute
Version: 2.12.0
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data MAGeCKFlute
StartedAt: 2025-10-13 20:10:17 -0400 (Mon, 13 Oct 2025)
EndedAt: 2025-10-13 20:19:29 -0400 (Mon, 13 Oct 2025)
EllapsedTime: 551.6 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data 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
2025-10-13 20:11:59.185 R[4459:2504817] XType: com.apple.fonts is not accessible.
2025-10-13 20:11:59.186 R[4459:2504817] XType: XTFontStaticRegistry is enabled.
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: 9 unlabeled data points (too many overlaps). Consider increasing max.overlaps
Warning: ggrepel: 4 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