Multiple platform build/check report for BioC 3.23 - BUILD results for cellbaseR on lconway

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo1	Linux (Ubuntu 24.04.3 LTS)	x86_64	R Under development (unstable) (2025-10-20 r88955) -- "Unsuffered Consequences"	4826
lconway	macOS 12.7.6 Monterey	x86_64	R Under development (unstable) (2025-10-21 r88958) -- "Unsuffered Consequences"	4561
kjohnson3	macOS 13.7.7 Ventura	arm64	R Under development (unstable) (2025-11-04 r88984) -- "Unsuffered Consequences"	4562
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 cellbaseR on lconway

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

Version: 1.35.0

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

StartedAt: 2025-11-17 16:29:27 -0500 (Mon, 17 Nov 2025)

EndedAt: 2025-11-17 16:29:52 -0500 (Mon, 17 Nov 2025)

EllapsedTime: 25.1 seconds

RetCode: 1

Status: ERROR

PackageFile: None

PackageFileSize: NA

Command output

##############################################################################
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###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data cellbaseR
###
##############################################################################
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* checking for file ‘cellbaseR/DESCRIPTION’ ... OK
* preparing ‘cellbaseR’:
* checking DESCRIPTION meta-information ... OK
* installing the package (it is needed to build vignettes)
* creating vignettes ... ERROR
--- re-building ‘cellbaseR.Rmd’ using rmarkdown

Quitting from cellbaseR.Rmd:56-67 [unnamed-chunk-2]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `curl::curl_fetch_memory()`:
! Timeout was reached [ws.zettagenomics.com]:
Operation timed out after 7000 milliseconds with 4098 bytes received
---
Backtrace:
    ▆
 1. ├─cellbaseR::CellBaseR()
 2. │ └─httr::GET(cbDocsUrl, timeout(7))
 3. │   └─httr:::request_perform(req, hu$handle$handle)
 4. │     ├─httr:::request_fetch(req$output, req$url, handle)
 5. │     └─httr:::request_fetch.write_memory(req$output, req$url, handle)
 6. │       └─curl::curl_fetch_memory(url, handle = handle)
 7. └─curl:::raise_libcurl_error(...)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'cellbaseR.Rmd' failed with diagnostics:
Timeout was reached [ws.zettagenomics.com]:
Operation timed out after 7000 milliseconds with 4098 bytes received
--- failed re-building ‘cellbaseR.Rmd’

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

Error: Vignette re-building failed.
Execution halted