Multiple platform build/check report for BioC 3.21 - BUILD results for regioneR on lconway

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo1	Linux (Ubuntu 24.04.1 LTS)	x86_64	R Under development (unstable) (2025-03-13 r87965) -- "Unsuffered Consequences"	4742
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 regioneR on lconway

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

Version: 1.39.0

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

StartedAt: 2025-03-18 18:14:02 -0400 (Tue, 18 Mar 2025)

EndedAt: 2025-03-18 18:15:35 -0400 (Tue, 18 Mar 2025)

EllapsedTime: 93.7 seconds

RetCode: 1

Status: ERROR

PackageFile: None

PackageFileSize: NA

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data regioneR
###
##############################################################################
##############################################################################


* checking for file ‘regioneR/DESCRIPTION’ ... OK
* preparing ‘regioneR’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘regioneR.Rmd’ using rmarkdown
2025-03-18 18:15:33.458 R[9345:436278715] XType: com.apple.fonts is not accessible.
2025-03-18 18:15:33.458 R[9345:436278715] XType: XTFontStaticRegistry is enabled.

Quitting from regioneR.Rmd:70-73 [unnamed-chunk-5]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `options()`:
! invalid 'scipen'
---
Backtrace:
    ▆
 1. ├─base::plot(lz)
 2. ├─base::plot(lz)
 3. └─regioneR:::plot.localZScoreResultsList(lz)
 4.   └─base::lapply(x, plot)
 5.     ├─base (local) FUN(X[[i]], ...)
 6.     └─regioneR:::plot.localZScoreResults(X[[i]], ...)
 7.       └─base::options(scipen = old.scipen)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'regioneR.Rmd' failed with diagnostics:
invalid 'scipen'
--- failed re-building ‘regioneR.Rmd’

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

Error: Vignette re-building failed.
Execution halted