Multiple platform build/check report for BioC 3.22 - BUILD results for scviR on palomino8

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo2	Linux (Ubuntu 24.04.3 LTS)	x86_64	4.5.1 (2025-06-13) -- "Great Square Root"	4818
palomino8	Windows Server 2022 Datacenter	x64	4.5.1 (2025-06-13 ucrt) -- "Great Square Root"	4554
lconway	macOS 12.7.1 Monterey	x86_64	4.5.1 (2025-06-13) -- "Great Square Root"	4595
kjohnson3	macOS 13.7.7 Ventura	arm64	4.5.1 Patched (2025-06-14 r88325) -- "Great Square Root"	4537
taishan	Linux (openEuler 24.03 LTS)	aarch64	4.5.0 (2025-04-11) -- "How About a Twenty-Six"	4535
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 scviR on palomino8

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

Version: 1.9.11

Command: chmod a+r scviR -R && F:\biocbuild\bbs-3.22-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data scviR

StartedAt: 2025-08-14 23:11:52 -0400 (Thu, 14 Aug 2025)

EndedAt: 2025-08-14 23:13:10 -0400 (Thu, 14 Aug 2025)

EllapsedTime: 78.4 seconds

RetCode: 1

Status: ERROR

PackageFile: None

PackageFileSize: NA

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   chmod a+r scviR -R && F:\biocbuild\bbs-3.22-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data scviR
###
##############################################################################
##############################################################################


* checking for file 'scviR/DESCRIPTION' ... OK
* preparing 'scviR':
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building 'citeseq_tut.Rmd' using rmarkdown
--- finished re-building 'citeseq_tut.Rmd'

--- re-building 'compch12.Rmd' using rmarkdown
:: [Info] ::  Mirror: https://www.python.org/ftp/python
:: [Info] ::  Mirror: https://downloads.python.org/pypy/versions.json
:: [Info] ::  Mirror: https://api.github.com/repos/oracle/graalpython/releases
:: [Installing] ::  3.10.11 ...
:: [Error] :: error installing "core" component MSI.
:: [Error] :: couldn't install 3.10.11

Quitting from compch12.Rmd:49-53 [getdat2]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `pyenv_python()`:
! Python NA does not appear to be installed.
Try installing it with install_python(version = "NA").
---
Backtrace:
    ▆
 1. └─scviR::getTotalVI5k10kAdata()
 2.   └─scviR::anndataR()
 3.     └─basilisk::basiliskStart(bsklenv, testload = "anndata")
 4.       └─basilisk::obtainEnvironmentPath(env)
 5.         └─basilisk::setupBasiliskEnv(...)
 6.           ├─base::suppressMessages(install_python(version))
 7.           │ └─base::withCallingHandlers(...)
 8.           └─reticulate::install_python(version)
 9.             └─reticulate:::pyenv_python(version = version)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'compch12.Rmd' failed with diagnostics:
Python NA does not appear to be installed.
Try installing it with install_python(version = "NA").
--- failed re-building 'compch12.Rmd'

--- re-building 'new_citeseq.Rmd' using rmarkdown
:: [Info] ::  Mirror: https://www.python.org/ftp/python
:: [Info] ::  Mirror: https://downloads.python.org/pypy/versions.json
:: [Info] ::  Mirror: https://api.github.com/repos/oracle/graalpython/releases
:: [Installing] ::  3.10.11 ...
:: [Error] :: error installing "core" component MSI.
:: [Error] :: couldn't install 3.10.11

Quitting from new_citeseq.Rmd:41-48 [doe44]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `pyenv_python()`:
! Python NA does not appear to be installed.
Try installing it with install_python(version = "NA").
---
Backtrace:
    ▆
 1. └─scviR::muonR()
 2.   └─basilisk::basiliskStart(bsklenv, testload = "anndata")
 3.     └─basilisk::obtainEnvironmentPath(env)
 4.       └─basilisk::setupBasiliskEnv(...)
 5.         ├─base::suppressMessages(install_python(version))
 6.         │ └─base::withCallingHandlers(...)
 7.         └─reticulate::install_python(version)
 8.           └─reticulate:::pyenv_python(version = version)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'new_citeseq.Rmd' failed with diagnostics:
Python NA does not appear to be installed.
Try installing it with install_python(version = "NA").
--- failed re-building 'new_citeseq.Rmd'

--- re-building 'scviR.Rmd' using rmarkdown
--- finished re-building 'scviR.Rmd'

SUMMARY: processing the following files failed:
  'compch12.Rmd' 'new_citeseq.Rmd'

Error: Vignette re-building failed.
Execution halted