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This page was generated on 2026-01-01 15:01 -0500 (Thu, 01 Jan 2026).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.3 LTS)x86_64R Under development (unstable) (2025-12-22 r89219) -- "Unsuffered Consequences" 4808
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 352/431HostnameOS / ArchINSTALLBUILDCHECK
scATAC.Explorer 1.17.0  (landing page)
Jonathan Wang
Snapshot Date: 2026-01-01 07:00 -0500 (Thu, 01 Jan 2026)
git_url: https://git.bioconductor.org/packages/scATAC.Explorer
git_branch: devel
git_last_commit: 295a297
git_last_commit_date: 2025-10-29 10:04:34 -0500 (Wed, 29 Oct 2025)
nebbiolo1Linux (Ubuntu 24.04.3 LTS) / x86_64  OK    ERROR  skipped

BUILD results for scATAC.Explorer on nebbiolo1

To the developers/maintainers of the scATAC.Explorer 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: scATAC.Explorer
Version: 1.17.0
Command: /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data scATAC.Explorer
StartedAt: 2026-01-01 11:41:05 -0500 (Thu, 01 Jan 2026)
EndedAt: 2026-01-01 11:41:42 -0500 (Thu, 01 Jan 2026)
EllapsedTime: 36.8 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

##############################################################################
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### Running command:
###
###   /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data scATAC.Explorer
###
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* checking for file ‘scATAC.Explorer/DESCRIPTION’ ... OK
* preparing ‘scATAC.Explorer’:
* checking DESCRIPTION meta-information ... OK
* installing the package (it is needed to build vignettes)
* creating vignettes ... ERROR
--- re-building ‘scATAC.Explorer.Rmd’ using rmarkdown

Quitting from scATAC.Explorer.Rmd:119-121 [unnamed-chunk-8]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `h()`:
! error in evaluating the argument 'x' in selecting a method for function 'as.matrix': error in evaluating the argument 'object' in selecting a method for function 'counts': subscript out of bounds
---
Backtrace:
    ▆
 1. ├─knitr::kable(data.frame(as.matrix(counts(res[[1]][1:10, 1:8]))))
 2. ├─base::data.frame(as.matrix(counts(res[[1]][1:10, 1:8])))
 3. ├─base::as.matrix(counts(res[[1]][1:10, 1:8]))
 4. ├─BiocGenerics::counts(res[[1]][1:10, 1:8])
 5. ├─base (local) `<fn>`(`<sbscOOBE>`)
 6. └─base::.handleSimpleError(...)
 7.   └─base (local) h(simpleError(msg, call))
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'scATAC.Explorer.Rmd' failed with diagnostics:
error in evaluating the argument 'x' in selecting a method for function 'as.matrix': error in evaluating the argument 'object' in selecting a method for function 'counts': subscript out of bounds
--- failed re-building ‘scATAC.Explorer.Rmd’

SUMMARY: processing the following file failed:
  ‘scATAC.Explorer.Rmd’

Error: Vignette re-building failed.
Execution halted