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This page was generated on 2025-12-29 11:58 -0500 (Mon, 29 Dec 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.3 LTS)x86_644.5.2 (2025-10-31) -- "[Not] Part in a Rumble" 4883
taishanLinux (openEuler 24.03 LTS)aarch644.5.0 (2025-04-11) -- "How About a Twenty-Six" 4671
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 1330/2361HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
mitch 1.22.0  (landing page)
Mark Ziemann
Snapshot Date: 2025-12-25 13:45 -0500 (Thu, 25 Dec 2025)
git_url: https://git.bioconductor.org/packages/mitch
git_branch: RELEASE_3_22
git_last_commit: cae4ecb
git_last_commit_date: 2025-10-29 10:55:52 -0500 (Wed, 29 Oct 2025)
nebbiolo2Linux (Ubuntu 24.04.3 LTS) / x86_64  OK    ERROR  skipped
taishanLinux (openEuler 24.03 LTS) / aarch64  OK    ERROR  skipped

BUILD results for mitch on nebbiolo2

To the developers/maintainers of the mitch package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/mitch.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: mitch
Version: 1.22.0
Command: /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data --md5 mitch
StartedAt: 2025-12-25 18:52:37 -0500 (Thu, 25 Dec 2025)
EndedAt: 2025-12-25 18:56:50 -0500 (Thu, 25 Dec 2025)
EllapsedTime: 253.2 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

##############################################################################
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###
### Running command:
###
###   /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data --md5 mitch
###
##############################################################################
##############################################################################


* checking for file ‘mitch/DESCRIPTION’ ... OK
* preparing ‘mitch’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘infiniumMethArrayWorkflow.Rmd’ using rmarkdown

Quitting from infiniumMethArrayWorkflow.Rmd:105-108 [import1]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `file()`:
! cannot open the connection to 'https://ziemann-lab.net/public/gmea/dma3a.tsv'
---
Backtrace:
    ▆
 1. └─utils::read.table(...)
 2.   └─base::file(file, "rt")
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'infiniumMethArrayWorkflow.Rmd' failed with diagnostics:
cannot open the connection to 'https://ziemann-lab.net/public/gmea/dma3a.tsv'
--- failed re-building ‘infiniumMethArrayWorkflow.Rmd’

--- re-building ‘mitchWorkflow.Rmd’ using rmarkdown
trying URL 'https://reactome.org/download/current/ReactomePathways.gmt.zip'
Content type 'application/zip' length 291075 bytes (284 KB)
==================================================
downloaded 284 KB

--- finished re-building ‘mitchWorkflow.Rmd’

SUMMARY: processing the following file failed:
  ‘infiniumMethArrayWorkflow.Rmd’

Error: Vignette re-building failed.
Execution halted