Workflows build report for BioC 3.22 - BUILD results for maEndToEnd on nebbiolo2

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo2	Linux (Ubuntu 24.04.3 LTS)	x86_64	4.5.2 (2025-10-31) -- "[Not] Part in a Rumble"	4875
merida1	macOS 12.7.6 Monterey	x86_64	4.5.2 Patched (2025-11-05 r88990) -- "[Not] Part in a Rumble"	4656
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*

BUILD results for maEndToEnd on nebbiolo2

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: 2.30.0

Command: /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data maEndToEnd

StartedAt: 2025-11-25 13:05:56 -0500 (Tue, 25 Nov 2025)

EndedAt: 2025-11-25 13:18:44 -0500 (Tue, 25 Nov 2025)

EllapsedTime: 767.5 seconds

RetCode: 1

Status: ERROR

PackageFile: None

PackageFileSize: NA

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.22-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 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/2255_II.CEL'
Content type 'unknown' length 11149443 bytes (10.6 MB)
==================================================
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/fire/E-MTAB-/967/E-MTAB-2967/Files/255_II.CEL'
Content type 'unknown' length 11148839 bytes (10.6 MB)
==================================================
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/fire/E-MTAB-/967/E-MTAB-2967/Files/3223_I.CEL'
Content type 'unknown' length 11142335 bytes (10.6 MB)
==================================================
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/fire/E-MTAB-/967/E-MTAB-2967/Files/3266_I.CEL'
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/fire/E-MTAB-/967/E-MTAB-2967/Files/3302_II.CEL'
Content type 'unknown' length 11170603 bytes (10.7 MB)
==================================================
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/fire/E-MTAB-/967/E-MTAB-2967/Files/888_II.CEL'
Content type 'unknown' length 11138831 bytes (10.6 MB)
==================================================
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/3266_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/3266_I.CEL
--- failed re-building ‘MA-Workflow.Rmd’

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

Error: Vignette re-building failed.
Execution halted