Multiple platform build/check report for BioC 3.21 - BUILD results for slingshot on kunpeng2

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"	4783
palomino7	Windows Server 2022 Datacenter	x64	R Under development (unstable) (2025-03-01 r87860 ucrt) -- "Unsuffered Consequences"	4552
lconway	macOS 12.7.1 Monterey	x86_64	R Under development (unstable) (2025-03-02 r87868) -- "Unsuffered Consequences"	4581
kjohnson3	macOS 13.7.1 Ventura	arm64	R Under development (unstable) (2025-03-02 r87868) -- "Unsuffered Consequences"	4533
kunpeng2	Linux (openEuler 24.03 LTS)	aarch64	R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences"	4463
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 slingshot on kunpeng2

To the developers/maintainers of the slingshot package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/slingshot.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.
- See Martin Grigorov's blog post for how to debug Linux ARM64 related issues on a x86_64 host.

raw results

Summary

Package: slingshot

Version: 2.15.0

Command: /home/biocbuild/R/R/bin/R CMD build --keep-empty-dirs --no-resave-data slingshot

StartedAt: 2025-03-26 02:34:13 -0000 (Wed, 26 Mar 2025)

EndedAt: 2025-03-26 02:35:23 -0000 (Wed, 26 Mar 2025)

EllapsedTime: 70.1 seconds

RetCode: 1

Status: ERROR

PackageFile: None

PackageFileSize: NA

Command output

##############################################################################
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### Running command:
###
###   /home/biocbuild/R/R/bin/R CMD build --keep-empty-dirs --no-resave-data slingshot
###
##############################################################################
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* checking for file ‘slingshot/DESCRIPTION’ ... OK
* preparing ‘slingshot’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘conditionsVignette.Rmd’ using rmarkdown
--- finished re-building ‘conditionsVignette.Rmd’

--- re-building ‘vignette.Rmd’ using rmarkdown

Quitting from vignette.Rmd:275-277 [sling_sce]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `mst()`:
! At vendor/cigraph/src/misc/spanning_trees.c:283 : Weigths must not contain NaN values. Invalid value
---
Backtrace:
     ▆
  1. ├─slingshot::slingshot(sce, clusterLabels = "GMM", reducedDim = "PCA")
  2. └─slingshot::slingshot(sce, clusterLabels = "GMM", reducedDim = "PCA")
  3.   └─slingshot (local) .local(data, clusterLabels, ...)
  4.     ├─slingshot::slingshot(...)
  5.     └─slingshot::slingshot(...)
  6.       ├─slingshot::slingshot(...)
  7.       └─slingshot::slingshot(...)
  8.         └─slingshot (local) .local(data, clusterLabels, ...)
  9.           ├─slingshot::getLineages(...)
 10.           └─slingshot::getLineages(...)
 11.             ├─slingshot::getLineages(...)
 12.             └─slingshot::getLineages(...)
 13.               └─slingshot (local) .local(data, clusterLabels, ...)
 14.                 ├─TrajectoryUtils::createClusterMST(...)
 15.                 └─TrajectoryUtils::createClusterMST(...)
 16.                   └─TrajectoryUtils (local) .local(x, ...)
 17.                     └─igraph::minimum.spanning.tree(g)
 18.                       └─igraph::mst(...)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'vignette.Rmd' failed with diagnostics:
At vendor/cigraph/src/misc/spanning_trees.c:283 : Weigths must not contain NaN values. Invalid value
--- failed re-building ‘vignette.Rmd’

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

Error: Vignette re-building failed.
Execution halted