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This page was generated on 2025-04-24 15:41 -0400 (Thu, 24 Apr 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.1 LTS)x86_644.5.0 (2025-04-11) -- "How About a Twenty-Six" 4722
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 350/429HostnameOS / ArchINSTALLBUILDCHECK
scATAC.Explorer 1.15.0  (landing page)
Arrian Gibson-Khademi
Snapshot Date: 2025-04-24 07:30 -0400 (Thu, 24 Apr 2025)
git_url: https://git.bioconductor.org/packages/scATAC.Explorer
git_branch: devel
git_last_commit: 6fb0da1
git_last_commit_date: 2025-04-15 10:21:47 -0400 (Tue, 15 Apr 2025)
nebbiolo2Linux (Ubuntu 24.04.1 LTS) / x86_64  OK    ERROR  skipped

BUILD results for scATAC.Explorer on nebbiolo2

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: 1.15.0
Command: /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data scATAC.Explorer
StartedAt: 2025-04-24 11:39:17 -0400 (Thu, 24 Apr 2025)
EndedAt: 2025-04-24 11:40:00 -0400 (Thu, 24 Apr 2025)
EllapsedTime: 42.8 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 scATAC.Explorer
###
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* checking for file ‘scATAC.Explorer/DESCRIPTION’ ... OK
* preparing ‘scATAC.Explorer’:
* checking DESCRIPTION meta-information ... OK
* installing the package 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