Multiple platform build/check report for BioC 3.20 - BUILD results for velociraptor on taishan

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 velociraptor on taishan

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

Version: 1.16.0

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

StartedAt: 2025-03-21 03:23:50 -0000 (Fri, 21 Mar 2025)

EndedAt: 2025-03-21 03:24:55 -0000 (Fri, 21 Mar 2025)

EllapsedTime: 65.0 seconds

RetCode: 1

Status: ERROR

PackageFile: None

PackageFileSize: NA

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/R/R/bin/R CMD build --keep-empty-dirs --no-resave-data velociraptor
###
##############################################################################
##############################################################################


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

Quitting from velociraptor.Rmd:75-82 [unnamed-chunk-5]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `.activate_fallback()`:
! AttributeError: module 'scipy.linalg' has no attribute 'tril'
Run `reticulate::py_last_error()` for details.
---
Backtrace:
     ▆
  1. ├─velociraptor::scvelo(...)
  2. └─velociraptor::scvelo(...)
  3.   └─velociraptor (local) .local(x, ...)
  4.     ├─methods::callNextMethod(x, ..., sf.X = sf.X, dimred = dimred)
  5.     │ └─base::eval(call, callEnv)
  6.     │   └─base::eval(call, callEnv)
  7.     └─velociraptor (local) .nextMethod(x, ..., sf.X = sf.X, dimred = dimred)
  8.       └─velociraptor (local) .local(x, ...)
  9.         └─velociraptor:::.scvelo(...)
 10.           └─basilisk::basiliskRun(...)
 11.             └─basilisk::basiliskStart(...)
 12.               └─basilisk:::.activate_fallback(...)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'velociraptor.Rmd' failed with diagnostics:
AttributeError: module 'scipy.linalg' has no attribute 'tril'
Run `reticulate::py_last_error()` for details.
--- failed re-building ‘velociraptor.Rmd’

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

Error: Vignette re-building failed.
Execution halted