Back to Workflows build report for BioC 3.21

This page was generated on 2025-04-22 16:30 -0400 (Tue, 22 Apr 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.1 LTS)x86_644.5.0 RC (2025-04-04 r88126) -- "How About a Twenty-Six" 4831
palomino7Windows Server 2022 Datacenterx644.5.0 RC (2025-04-04 r88126 ucrt) -- "How About a Twenty-Six" 4573
lconwaymacOS 12.7.1 Montereyx86_644.5.0 RC (2025-04-04 r88126) -- "How About a Twenty-Six" 4599
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 17/30HostnameOS / ArchINSTALLBUILD
maEndToEnd 2.28.0  (landing page)
Stefanie Reisenauer
Snapshot Date: 2025-04-22 12:45 -0400 (Tue, 22 Apr 2025)
git_url: https://git.bioconductor.org/packages/maEndToEnd
git_branch: RELEASE_3_21
git_last_commit: 37f53d2
git_last_commit_date: 2025-04-15 10:29:27 -0400 (Tue, 15 Apr 2025)
nebbiolo1Linux (Ubuntu 24.04.1 LTS) / x86_64  OK    ERROR  
palomino7Windows Server 2022 Datacenter / x64  OK    ERROR  
lconwaymacOS 12.7.1 Monterey / x86_64  OK    ERROR  

BUILD results for maEndToEnd on lconway

To the developers/maintainers of the maEndToEnd package:
- 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: maEndToEnd
Version: 2.28.0
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data maEndToEnd
StartedAt: 2025-04-22 13:04:44 -0400 (Tue, 22 Apr 2025)
EndedAt: 2025-04-22 13:05:40 -0400 (Tue, 22 Apr 2025)
EllapsedTime: 56.0 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

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### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data maEndToEnd
###
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* checking for file ‘maEndToEnd/DESCRIPTION’ ... OK
* preparing ‘maEndToEnd’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘MA-Workflow.Rmd’ using rmarkdown

Quitting from MA-Workflow.Rmd:223-228 [getDataEBI]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `get_filenames()`:
! object 'data_files' not found
---
Backtrace:
    ▆
 1. └─ArrayExpress::getAE("E-MTAB-2967", path = raw_data_dir, type = "raw")
 2.   └─ArrayExpress:::get_filenames(submissionMetaData, ftpLink, type)
 3.     └─base::nrow(data_files)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'MA-Workflow.Rmd' failed with diagnostics:
object 'data_files' not found
--- failed re-building ‘MA-Workflow.Rmd’

SUMMARY: processing the following file failed:
  ‘MA-Workflow.Rmd’

Error: Vignette re-building failed.
Execution halted