Multiple platform build/check report for BioC 3.24 - BUILD results for bandle on nebbiolo2

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo2	Linux (Ubuntu 24.04.4 LTS)	x86_64	4.6.0 RC (2026-04-17 r89917) -- "Because it was There"	4937
kjohnson3	macOS 13.7.7 Ventura	arm64	4.6.0 Patched (2026-05-01 r89994) -- "Because it was There"	4639
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 bandle on nebbiolo2

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

Version: 1.17.0

Command: /home/biocbuild/bbs-3.24-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data --md5 bandle

StartedAt: 2026-05-24 16:32:12 -0400 (Sun, 24 May 2026)

EndedAt: 2026-05-24 16:35:12 -0400 (Sun, 24 May 2026)

EllapsedTime: 180.1 seconds

RetCode: 1

Status: ERROR

PackageFile: None

PackageFileSize: NA

Command output

##############################################################################
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###
### Running command:
###
###   /home/biocbuild/bbs-3.24-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data --md5 bandle
###
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* checking for file ‘bandle/DESCRIPTION’ ... OK
* preparing ‘bandle’:
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package (it is needed to process help pages)
* saving partial Rd database
* creating vignettes ... ERROR
--- re-building ‘v01-getting-started.Rmd’ using rmarkdown
--- finished re-building ‘v01-getting-started.Rmd’

--- re-building ‘v02-workflow.Rmd’ using rmarkdown

Quitting from v02-workflow.Rmd:238-241 [runhyppar]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error:
! Parameters nu, a, rho must be positive
---
Backtrace:
     ▆
  1. ├─BiocGenerics::lapply(thplopit, function(x) fitGPmaternPC(x, hyppar = pc_prior))
  2. ├─MSnbase (local) lapply(thplopit, function(x) fitGPmaternPC(x, hyppar = pc_prior))
  3. │ ├─BiocGenerics::lapply(msnsets(X), FUN, ...)
  4. │ └─base::lapply(msnsets(X), FUN, ...)
  5. │   └─global FUN(X[[i]], ...)
  6. │     └─bandle::fitGPmaternPC(x, hyppar = pc_prior)
  7. │       └─base::apply(...)
  8. │         └─bandle (local) FUN(newX[, i], ...)
  9. │           └─lbfgs::lbfgs(...)
 10. └─bandle (local) `<fn>`(`<dbl>`, ...)
 11.   └─bandle:::likelihoodGPcpp(Xk, tau, h, nk, D, materncov, nu)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'v02-workflow.Rmd' failed with diagnostics:
Parameters nu, a, rho must be positive
--- failed re-building ‘v02-workflow.Rmd’

SUMMARY: processing the following file failed:
  ‘v02-workflow.Rmd’

Error: Vignette re-building failed.
Execution halted