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GPU-enabled build/check report for BioC 3.22
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This page was generated on 2025-12-22 02:30 -0500 (Mon, 22 Dec 2025).

HostnameOSArch (*)R versionInstalled pkgs
biocgpuLinux (Ubuntu 24.04.2 LTS)x86_644.5.2 (2025-10-31) -- "[Not] Part in a Rumble" 295
amaroneLinux (Ubuntu 24.04.3 LTS)x86_644.5.2 (2025-10-31) -- "[Not] Part in a Rumble" 296
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 3/3HostnameOS / ArchINSTALLBUILDCHECK
scviR 1.10.0  (landing page)
Vincent Carey
Snapshot Date: 2025-12-21 23:45 -0500 (Sun, 21 Dec 2025)
git_url: https://git.bioconductor.org/packages/scviR
git_branch: RELEASE_3_22
git_last_commit: 76c9278
git_last_commit_date: 2025-10-29 11:21:42 -0500 (Wed, 29 Oct 2025)
biocgpuLinux (Ubuntu 24.04.2 LTS) / x86_64  OK    ERROR  skipped
amaroneLinux (Ubuntu 24.04.3 LTS) / x86_64  OK    ERROR  skipped

BUILD results for scviR on amarone

To the developers/maintainers of the scviR 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: scviR
Version: 1.10.0
Command: /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data scviR
StartedAt: 2025-12-22 05:50:39 -0000 (Mon, 22 Dec 2025)
EndedAt: 2025-12-22 05:51:32 -0000 (Mon, 22 Dec 2025)
EllapsedTime: 53.0 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 scviR
###
##############################################################################
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* checking for file ‘scviR/DESCRIPTION’ ... OK
* preparing ‘scviR’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘citeseq_tut.Rmd’ using rmarkdown
--- finished re-building ‘citeseq_tut.Rmd’

--- re-building ‘compch12.Rmd’ using rmarkdown
The magick package is required to crop "/tmp/Rtmp7m5rZG/Rbuild1fea24ea7959/scviR/vignettes/compch12_files/figure-html/lkkey-1.png" but not available.
The magick package is required to crop "/tmp/Rtmp7m5rZG/Rbuild1fea24ea7959/scviR/vignettes/compch12_files/figure-html/lkadt-1.png" but not available.
The magick package is required to crop "/tmp/Rtmp7m5rZG/Rbuild1fea24ea7959/scviR/vignettes/compch12_files/figure-html/dosubcl-1.png" but not available.
The magick package is required to crop "/tmp/Rtmp7m5rZG/Rbuild1fea24ea7959/scviR/vignettes/compch12_files/figure-html/lkgra-1.png" but not available.
The magick package is required to crop "/tmp/Rtmp7m5rZG/Rbuild1fea24ea7959/scviR/vignettes/compch12_files/figure-html/lktotumap-1.png" but not available.
The magick package is required to crop "/tmp/Rtmp7m5rZG/Rbuild1fea24ea7959/scviR/vignettes/compch12_files/figure-html/domattot-1.png" but not available.
The magick package is required to crop "/tmp/Rtmp7m5rZG/Rbuild1fea24ea7959/scviR/vignettes/compch12_files/figure-html/lkconc-1.png" but not available.
The magick package is required to crop "/tmp/Rtmp7m5rZG/Rbuild1fea24ea7959/scviR/vignettes/compch12_files/figure-html/lksubsss-1.png" but not available.
The magick package is required to crop "/tmp/Rtmp7m5rZG/Rbuild1fea24ea7959/scviR/vignettes/compch12_files/figure-html/lkgradvi-1.png" but not available.
--- finished re-building ‘compch12.Rmd’

--- re-building ‘new_citeseq.Rmd’ using rmarkdown

Quitting from new_citeseq.Rmd:41-48 [doe44]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `py_module_import()`:
! ImportError: Numba needs NumPy 2.3 or less. Got NumPy 2.4.
Run `reticulate::py_last_error()` for details.
---
Backtrace:
    ▆
 1. └─scviR::muonR()
 2.   └─reticulate::import("muon")
 3.     └─reticulate:::py_module_import(module, convert = convert)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'new_citeseq.Rmd' failed with diagnostics:
ImportError: Numba needs NumPy 2.3 or less. Got NumPy 2.4.
Run `reticulate::py_last_error()` for details.
--- failed re-building ‘new_citeseq.Rmd’

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

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

Error: Vignette re-building failed.
Execution halted