Multiple platform build/check report for BioC 3.21 - BUILD results for scanMiRApp on kjohnson3

Hostname	OS	Arch (*)	R version	Installed pkgs
palomino7	Windows Server 2022 Datacenter	x64	R Under development (unstable) (2025-03-01 r87860 ucrt) -- "Unsuffered Consequences"	4545
lconway	macOS 12.7.1 Monterey	x86_64	R Under development (unstable) (2025-03-02 r87868) -- "Unsuffered Consequences"	4576
kjohnson3	macOS 13.7.1 Ventura	arm64	R Under development (unstable) (2025-03-02 r87868) -- "Unsuffered Consequences"	4528
kunpeng2	Linux (openEuler 24.03 LTS)	aarch64	R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences"	4459
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*

BUILD results for scanMiRApp on kjohnson3

To the developers/maintainers of the scanMiRApp package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/scanMiRApp.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: scanMiRApp

Version: 1.13.0

Command: /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data scanMiRApp

StartedAt: 2025-03-16 17:34:00 -0400 (Sun, 16 Mar 2025)

EndedAt: 2025-03-16 17:34:33 -0400 (Sun, 16 Mar 2025)

EllapsedTime: 33.3 seconds

RetCode: 1

Status: ERROR

PackageFile: None

PackageFileSize: NA

Command output

##############################################################################
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### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data scanMiRApp
###
##############################################################################
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* checking for file ‘scanMiRApp/DESCRIPTION’ ... OK
* preparing ‘scanMiRApp’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘IndexedFST.Rmd’ using rmarkdown
--- finished re-building ‘IndexedFST.Rmd’

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

Quitting from scanMiRApp.Rmd:73-75 [unnamed-chunk-3]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `unlist()`:
! 'recursive' must be a length-1 vector
---
Backtrace:
     ▆
  1. └─scanMiRApp::plotSitesOnUTR(...)
  2.   └─scanMiR::findSeedMatches(...)
  3.     └─scanMiR:::.find1SeedMatches(...)
  4.       └─scanMiR::get3pAlignment(...)
  5.         ├─pwalign::pairwiseAlignment(seqs, mir.3p, type = "local", substitutionMatrix = subm)
  6.         └─pwalign::pairwiseAlignment(seqs, mir.3p, type = "local", substitutionMatrix = subm)
  7.           └─pwalign (local) .local(pattern, subject, ...)
  8.             └─pwalign:::mpi.XStringSet.pairwiseAlignment(...)
  9.               └─pwalign:::XStringSet.pairwiseAlignment(...)
 10.                 ├─base::array(...)
 11.                 └─base::unlist(substitutionMatrix, substitutionMatrix)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'scanMiRApp.Rmd' failed with diagnostics:
'recursive' must be a length-1 vector
--- failed re-building ‘scanMiRApp.Rmd’

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

Error: Vignette re-building failed.
Execution halted