Back to Workflows build report for BioC 3.23

This page was generated on 2025-11-07 16:30 -0500 (Fri, 07 Nov 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.3 LTS)x86_64R Under development (unstable) (2025-10-20 r88955) -- "Unsuffered Consequences" 4818
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 16/28HostnameOS / ArchINSTALLBUILD
maEndToEnd 2.31.0  (landing page)
Stefanie Reisenauer
Snapshot Date: 2025-11-07 12:45 -0500 (Fri, 07 Nov 2025)
git_url: https://git.bioconductor.org/packages/maEndToEnd
git_branch: devel
git_last_commit: c3f03c4
git_last_commit_date: 2025-10-29 09:47:14 -0500 (Wed, 29 Oct 2025)
nebbiolo1Linux (Ubuntu 24.04.3 LTS) / x86_64  OK    ERROR  

BUILD results for maEndToEnd on nebbiolo1

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: 2.31.0
Command: /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data maEndToEnd
StartedAt: 2025-11-07 13:05:07 -0500 (Fri, 07 Nov 2025)
EndedAt: 2025-11-07 13:06:23 -0500 (Fri, 07 Nov 2025)
EllapsedTime: 76.0 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data maEndToEnd
###
##############################################################################
##############################################################################


* checking for file ‘maEndToEnd/DESCRIPTION’ ... OK
* preparing ‘maEndToEnd’:
* checking DESCRIPTION meta-information ... OK
* installing the package (it is needed to build vignettes)
* creating vignettes ... ERROR
--- re-building ‘MA-Workflow.Rmd’ using rmarkdown
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/fire/E-MTAB-/967/E-MTAB-2967/Files/164_I_.CEL'
Content type 'unknown' length 11127291 bytes (10.6 MB)
==================================================
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/fire/E-MTAB-/967/E-MTAB-2967/Files/2853_I.CEL'
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/fire/E-MTAB-/967/E-MTAB-2967/Files/2978_I.CEL'
Content type 'unknown' length 11158567 bytes (10.6 MB)
==================================================
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/fire/E-MTAB-/967/E-MTAB-2967/Files/2978_II.CEL'
Content type 'unknown' length 11159179 bytes (10.6 MB)
==================================================
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/fire/E-MTAB-/967/E-MTAB-2967/Files/321_I.CEL'
Content type 'unknown' length 11145439 bytes (10.6 MB)
==================================================
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/fire/E-MTAB-/967/E-MTAB-2967/Files/3226_II.CEL'
Content type 'unknown' length 11141699 bytes (10.6 MB)
==================================================
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/fire/E-MTAB-/967/E-MTAB-2967/Files/3259_II.CEL'
Content type 'unknown' length 11134395 bytes (10.6 MB)
==================================================
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/fire/E-MTAB-/967/E-MTAB-2967/Files/848_A.CEL'
Content type 'unknown' length 11136167 bytes (10.6 MB)
==================================================
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/fire/E-MTAB-/967/E-MTAB-2967/Files/888_I.CEL'
trying URL 'https://www.ebi.ac.uk/biostudies/files/E-MTAB-2967/E-MTAB-2967.sdrf.txt'
Content type 'text/plain; charset=UTF-8' length 22516 bytes (21 KB)
==================================================
downloaded 21 KB


Quitting from MA-Workflow.Rmd:367-372 [importCelfiles]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error:
! These do not exist:
	 /home/biocbuild/.cache/R/maEndToEnd/2853_I.CEL
	 /home/biocbuild/.cache/R/maEndToEnd/888_I.CEL
---
Backtrace:
    ▆
 1. └─oligo::read.celfiles(...)
 2.   └─oligo:::checkValidFilenames(filenames)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'MA-Workflow.Rmd' failed with diagnostics:
These do not exist:
	 /home/biocbuild/.cache/R/maEndToEnd/2853_I.CEL
	 /home/biocbuild/.cache/R/maEndToEnd/888_I.CEL
--- failed re-building ‘MA-Workflow.Rmd’

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

Error: Vignette re-building failed.
Execution halted