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This page was generated on 2025-10-04 12:03 -0400 (Sat, 04 Oct 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.3 LTS)x86_644.5.1 Patched (2025-08-23 r88802) -- "Great Square Root" 4853
lconwaymacOS 12.7.1 Montereyx86_644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4640
kjohnson3macOS 13.7.7 Venturaarm644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4585
taishanLinux (openEuler 24.03 LTS)aarch644.5.0 (2025-04-11) -- "How About a Twenty-Six" 4576
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 145/2341HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
BatchQC 2.5.12  (landing page)
Jessica Anderson
Snapshot Date: 2025-10-03 13:45 -0400 (Fri, 03 Oct 2025)
git_url: https://git.bioconductor.org/packages/BatchQC
git_branch: devel
git_last_commit: 3db79cb
git_last_commit_date: 2025-09-30 13:41:56 -0400 (Tue, 30 Sep 2025)
nebbiolo2Linux (Ubuntu 24.04.3 LTS) / x86_64  OK    ERROR  skipped
lconwaymacOS 12.7.1 Monterey / x86_64  OK    ERROR  skippedskipped
kjohnson3macOS 13.7.7 Ventura / arm64  OK    ERROR  skippedskipped
taishanLinux (openEuler 24.03 LTS) / aarch64  OK    ERROR  skipped


BUILD results for BatchQC on nebbiolo2

To the developers/maintainers of the BatchQC package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/BatchQC.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: BatchQC
Version: 2.5.12
Command: /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data --md5 BatchQC
StartedAt: 2025-10-03 16:18:35 -0400 (Fri, 03 Oct 2025)
EndedAt: 2025-10-03 16:19:43 -0400 (Fri, 03 Oct 2025)
EllapsedTime: 68.1 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 --md5 BatchQC
###
##############################################################################
##############################################################################


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

Quitting from BatchQC_Intro.Rmd:470-475 [umap]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error:
! error in evaluating the argument 'i' in selecting a method for function '[[': argument "covar" is missing, with no default
---
Backtrace:
    ▆
 1. ├─BatchQC::umap(...)
 2. │ ├─base::data.frame(...)
 3. │ └─colData(se_object)[[covar]]
 4. └─base (local) `<fn>`(`<evalErrr>`)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'BatchQC_Intro.Rmd' failed with diagnostics:
error in evaluating the argument 'i' in selecting a method for function '[[': argument "covar" is missing, with no default
--- failed re-building ‘BatchQC_Intro.Rmd’

--- re-building ‘BatchQC_examples.Rmd’ using rmarkdown
--- finished re-building ‘BatchQC_examples.Rmd’

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

Error: Vignette re-building failed.
Execution halted