Multiple platform build/check report for BioC 3.20 - BUILD results for XINA on merida1

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo2	Linux (Ubuntu 24.04.1 LTS)	x86_64	4.4.3 (2025-02-28) -- "Trophy Case"	4763
palomino8	Windows Server 2022 Datacenter	x64	4.4.3 (2025-02-28 ucrt) -- "Trophy Case"	4494
merida1	macOS 12.7.5 Monterey	x86_64	4.4.3 (2025-02-28) -- "Trophy Case"	4521
kjohnson1	macOS 13.6.6 Ventura	arm64	4.4.3 (2025-02-28) -- "Trophy Case"	4448
taishan	Linux (openEuler 24.03 LTS)	aarch64	4.4.3 (2025-02-28) -- "Trophy Case"	4414
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 XINA on merida1

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

Version: 1.24.0

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

StartedAt: 2025-03-20 22:58:05 -0400 (Thu, 20 Mar 2025)

EndedAt: 2025-03-20 22:58:28 -0400 (Thu, 20 Mar 2025)

EllapsedTime: 22.3 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 XINA
###
##############################################################################
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* checking for file ‘XINA/DESCRIPTION’ ... OK
* preparing ‘XINA’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘xina_user_code.Rmd’ using rmarkdown

Quitting from xina_user_code.Rmd:118-121 [XINA clustering]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `svd()`:
! infinite or missing values in 'x'
---
Backtrace:
     ▆
  1. └─XINA::xina_clustering(...)
  2.   ├─mclust::Mclust(superset[data_column], G = 2:nClusters)
  3.   │ └─base::eval(mc, parent.frame())
  4.   │   └─base::eval(mc, parent.frame())
  5.   └─mclust::mclustBIC(data = `<dbl[,7]>`, G = 2:nClusters)
  6.     ├─mclust::me(...)
  7.     │ └─base::eval(mc, parent.frame())
  8.     │   └─base::eval(mc, parent.frame())
  9.     └─mclust::meVEE(...)
 10.       └─base::svd(shape.o, nu = 0)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'xina_user_code.Rmd' failed with diagnostics:
infinite or missing values in 'x'
--- failed re-building ‘xina_user_code.Rmd’

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

Error: Vignette re-building failed.
Execution halted