Multiple platform build/check report for BioC 3.22 - BUILD results for velociraptor on taishan

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo2	Linux (Ubuntu 24.04.3 LTS)	x86_64	4.5.1 Patched (2025-08-23 r88802) -- "Great Square Root"	4898
lconway	macOS 12.7.6 Monterey	x86_64	4.5.1 Patched (2025-09-10 r88807) -- "Great Square Root"	4688
kjohnson3	macOS 13.7.7 Ventura	arm64	4.5.1 Patched (2025-09-10 r88807) -- "Great Square Root"	4634
taishan	Linux (openEuler 24.03 LTS)	aarch64	4.5.0 (2025-04-11) -- "How About a Twenty-Six"	4658
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: 1.19.1

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

StartedAt: 2025-10-21 04:00:09 -0000 (Tue, 21 Oct 2025)

EndedAt: 2025-10-21 04:01:15 -0000 (Tue, 21 Oct 2025)

EllapsedTime: 66.0 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
Requirement already satisfied: pip in /home/biocbuild/.cache/R/basilisk/1.21.5/velociraptor/1.19.1/env/lib/python3.12/site-packages (25.0.1)
Collecting pip
  Using cached pip-25.2-py3-none-any.whl.metadata (4.7 kB)
Collecting wheel
  Using cached wheel-0.45.1-py3-none-any.whl.metadata (2.3 kB)
Collecting setuptools
  Using cached setuptools-80.9.0-py3-none-any.whl.metadata (6.6 kB)
Using cached pip-25.2-py3-none-any.whl (1.8 MB)
Using cached wheel-0.45.1-py3-none-any.whl (72 kB)
Using cached setuptools-80.9.0-py3-none-any.whl (1.2 MB)
Installing collected packages: wheel, setuptools, pip
  Attempting uninstall: pip
    Found existing installation: pip 25.0.1
    Uninstalling pip-25.0.1:
      Successfully uninstalled pip-25.0.1
Successfully installed pip-25.2 setuptools-80.9.0 wheel-0.45.1
Collecting ipywidgets==8.1.2
  Using cached ipywidgets-8.1.2-py3-none-any.whl.metadata (2.4 kB)
ERROR: Could not find a version that satisfies the requirement libtiff==4.5.1 (from versions: 0.4.0, 0.4.1, 0.4.2)
ERROR: No matching distribution found for libtiff==4.5.1

Quitting from velociraptor.Rmd:75-82 [unnamed-chunk-5]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error:
! Error installing package(s): "'ipywidgets==8.1.2'", "'libtiff==4.5.1'", "'pillow==10.0.0'", "'scipy==1.13.1'", "'scvelo==0.3.3'", "'tqdm==4.66.5'"
---
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::obtainEnvironmentPath(env)
 13.                 └─basilisk::setupBasiliskEnv(...)
 14.                   └─reticulate::virtualenv_create(...)
 15.                     └─reticulate:::pip_install(python, packages)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'velociraptor.Rmd' failed with diagnostics:
Error installing package(s): "'ipywidgets==8.1.2'", "'libtiff==4.5.1'", "'pillow==10.0.0'", "'scipy==1.13.1'", "'scvelo==0.3.3'", "'tqdm==4.66.5'"
--- failed re-building ‘velociraptor.Rmd’

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

Error: Vignette re-building failed.
Execution halted