Back to Workflows build report for BioC 3.22

This page was generated on 2025-10-21 16:30 -0400 (Tue, 21 Oct 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.3 LTS)x86_644.5.1 Patched (2025-08-23 r88802) -- "Great Square Root" 4888
lconwaymacOS 12.7.6 Montereyx86_644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4677
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 27/29HostnameOS / ArchINSTALLBUILD
spicyWorkflow 1.9.1  (landing page)
SOMS Maintainer
Snapshot Date: 2025-10-21 12:45 -0400 (Tue, 21 Oct 2025)
git_url: https://git.bioconductor.org/packages/spicyWorkflow
git_branch: devel
git_last_commit: b218128
git_last_commit_date: 2025-10-03 07:20:37 -0400 (Fri, 03 Oct 2025)
nebbiolo2Linux (Ubuntu 24.04.3 LTS) / x86_64  OK    ERROR  
lconwaymacOS 12.7.6 Monterey / x86_64  OK    OK  

BUILD results for spicyWorkflow on nebbiolo2

To the developers/maintainers of the spicyWorkflow 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: spicyWorkflow
Version: 1.9.1
Command: /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data spicyWorkflow
StartedAt: 2025-10-21 13:12:07 -0400 (Tue, 21 Oct 2025)
EndedAt: 2025-10-21 13:43:11 -0400 (Tue, 21 Oct 2025)
EllapsedTime: 1863.7 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 spicyWorkflow
###
##############################################################################
##############################################################################


* checking for file ‘spicyWorkflow/DESCRIPTION’ ... OK
* preparing ‘spicyWorkflow’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘spicyWorkflow.Rmd’ using rmarkdown

Quitting from spicyWorkflow.Rmd:774-791 [unnamed-chunk-40]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `rowMeans()`:
! 'x' must be an array of at least two dimensions
---
Backtrace:
    ▆
 1. └─treekoR::getClusterTree(...)
 2.   └─treekoR::runHOPACH(...)
 3.     └─hopach::hopach(data, K = K, dmat = dist, kmax = kmax)
 4.       └─hopach::mssrundown(...)
 5.         └─hopach::mssnextlevel(...)
 6.           └─base::rowMeans(dmat[labels == ordlabels[j], labels == labels[medoid2]])
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'spicyWorkflow.Rmd' failed with diagnostics:
'x' must be an array of at least two dimensions
--- failed re-building ‘spicyWorkflow.Rmd’

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

Error: Vignette re-building failed.
Execution halted