Back to Multiple platform build/check report for BioC 3.20:   simplified   long
ABCDEFGHIJKL[M]NOPQRSTUVWXYZ

This page was generated on 2025-04-02 19:28 -0400 (Wed, 02 Apr 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.1 LTS)x86_644.4.3 (2025-02-28) -- "Trophy Case" 4764
palomino8Windows Server 2022 Datacenterx644.4.3 (2025-02-28 ucrt) -- "Trophy Case" 4495
merida1macOS 12.7.5 Montereyx86_644.4.3 (2025-02-28) -- "Trophy Case" 4522
kjohnson1macOS 13.6.6 Venturaarm644.4.3 (2025-02-28) -- "Trophy Case" 4449
taishanLinux (openEuler 24.03 LTS)aarch644.4.3 (2025-02-28) -- "Trophy Case" 4426
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 1139/2289HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
MAGeCKFlute 2.10.0  (landing page)
Wubing Zhang
Snapshot Date: 2025-03-31 13:00 -0400 (Mon, 31 Mar 2025)
git_url: https://git.bioconductor.org/packages/MAGeCKFlute
git_branch: RELEASE_3_20
git_last_commit: 1787736
git_last_commit_date: 2024-10-29 10:24:27 -0400 (Tue, 29 Oct 2024)
nebbiolo2Linux (Ubuntu 24.04.1 LTS) / x86_64  OK    ERROR  skipped
palomino8Windows Server 2022 Datacenter / x64  OK    ERROR  skippedskipped
merida1macOS 12.7.5 Monterey / x86_64  OK    ERROR  skippedskipped
kjohnson1macOS 13.6.6 Ventura / arm64  OK    ERROR  skippedskipped
taishanLinux (openEuler 24.03 LTS) / aarch64  OK    ERROR  skipped

BUILD results for MAGeCKFlute on nebbiolo2

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: 2.10.0
Command: /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data --md5 MAGeCKFlute
StartedAt: 2025-03-31 17:50:48 -0400 (Mon, 31 Mar 2025)
EndedAt: 2025-03-31 17:53:08 -0400 (Mon, 31 Mar 2025)
EllapsedTime: 140.2 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.20-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