Multiple platform build/check report for BioC 3.22 - BUILD results for survClust on kjohnson1

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo2	Linux (Ubuntu 24.04.3 LTS)	x86_64	4.5.2 (2025-10-31) -- "[Not] Part in a Rumble"	4615
merida1	macOS 12.7.6 Monterey	x86_64	4.5.2 Patched (2025-11-05 r88990) -- "[Not] Part in a Rumble"	4610
kjohnson1	macOS 13.7.5 Ventura	arm64	4.5.2 Patched (2025-11-04 r88984) -- "[Not] Part in a Rumble"	4598
taishan	Linux (openEuler 24.03 LTS)	aarch64	4.5.0 (2025-04-11) -- "How About a Twenty-Six"	4668
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 survClust on kjohnson1

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

Version: 1.4.0

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

StartedAt: 2025-11-18 01:39:32 -0500 (Tue, 18 Nov 2025)

EndedAt: 2025-11-18 01:39:53 -0500 (Tue, 18 Nov 2025)

EllapsedTime: 21.2 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 survClust
###
##############################################################################
##############################################################################


* checking for file ‘survClust/DESCRIPTION’ ... OK
* preparing ‘survClust’:
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘survClust_vignette.Rmd’ using rmarkdown
2025-11-18 01:39:49.076 R[92170:5129762] XType: Using static font registry.

Quitting from survClust_vignette.Rmd:235-255 [unnamed-chunk-12]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `reducer$value.cache[[as.character(idx)]] <- values`:
! wrong args for environment subassignment
---
Backtrace:
     ▆
  1. ├─BiocParallel::bplapply(2:7, sim_cvrounds)
  2. └─BiocParallel::bplapply(2:7, sim_cvrounds)
  3.   ├─BiocParallel::bplapply(...)
  4.   └─BiocParallel::bplapply(...)
  5.     └─BiocParallel:::.bpinit(...)
  6.       ├─BiocParallel::bploop(...)
  7.       └─BiocParallel:::bploop.lapply(...)
  8.         └─BiocParallel:::.bploop_impl(...)
  9.           └─BiocParallel:::.collect_result(manager, reducer, progress, BPPARAM)
 10.             ├─BiocParallel:::.reducer_add(reducer, njob, value)
 11.             └─BiocParallel:::.reducer_add(reducer, njob, value)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'survClust_vignette.Rmd' failed with diagnostics:
wrong args for environment subassignment
--- failed re-building ‘survClust_vignette.Rmd’

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

Error: Vignette re-building failed.
Execution halted