Build/check report for BioC 3.22 experimental data - BUILD results for TMExplorer on nebbiolo2

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo2	Linux (Ubuntu 24.04.1 LTS)	x86_64	4.5.0 (2025-04-11) -- "How About a Twenty-Six"	4722
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 TMExplorer on nebbiolo2

To the developers/maintainers of the TMExplorer package:
- 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: TMExplorer

Version: 1.19.0

Command: /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data TMExplorer

StartedAt: 2025-04-24 11:44:08 -0400 (Thu, 24 Apr 2025)

EndedAt: 2025-04-24 11:44:50 -0400 (Thu, 24 Apr 2025)

EllapsedTime: 42.0 seconds

RetCode: 1

Status: ERROR

PackageFile: None

PackageFileSize: NA

Command output

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### Running command:
###
###   /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data TMExplorer
###
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* checking for file ‘TMExplorer/DESCRIPTION’ ... OK
* preparing ‘TMExplorer’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘TMExplorer.Rmd’ using rmarkdown

Quitting from TMExplorer.Rmd:89-91 [unnamed-chunk-6]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error:
! Error while performing HEAD request
---
Backtrace:
     ▆
  1. ├─TMExplorer::queryTME(geo_accession = "GSE81861")
  2. │ └─TMExplorer:::fetchTME(df, row, sparse)
  3. │   └─TMExplorer:::downloadTME(df, row, "expression_link", bfc)
  4. │     ├─BiocFileCache::bfcadd(...)
  5. │     └─BiocFileCache::bfcadd(...)
  6. │       └─BiocFileCache:::.util_download(...)
  7. │         └─BiocFileCache:::.util_set_cache_info(bfc, rid[ok])
  8. │           └─BiocFileCache:::.httr_get_cache_info(fpath)
  9. │             ├─base::withCallingHandlers(...)
 10. │             └─request(link) %>% req_method("HEAD") %>% req_perform()
 11. ├─httr2::req_perform(.)
 12. │ └─httr2:::handle_resp(req, resp, error_call = error_call)
 13. │   └─rlang::cnd_signal(cnd)
 14. │     └─rlang:::signal_abort(cnd)
 15. │       └─base::signalCondition(cnd)
 16. └─BiocFileCache (local) `<fn>`(`<ht2__403>`)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'TMExplorer.Rmd' failed with diagnostics:
Error while performing HEAD request
--- failed re-building ‘TMExplorer.Rmd’

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

Error: Vignette re-building failed.
Execution halted