Multiple platform build/check report for BioC 3.22 - BUILD results for ncRNAtools on kjohnson3

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo2	Linux (Ubuntu 24.04.2 LTS)	x86_64	4.5.1 (2025-06-13) -- "Great Square Root"	4815
palomino8	Windows Server 2022 Datacenter	x64	4.5.1 (2025-06-13 ucrt) -- "Great Square Root"	4550
lconway	macOS 12.7.1 Monterey	x86_64	4.5.1 (2025-06-13) -- "Great Square Root"	4592
kjohnson3	macOS 13.7.1 Ventura	arm64	4.5.1 Patched (2025-06-14 r88325) -- "Great Square Root"	4534
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 ncRNAtools on kjohnson3

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

Version: 1.19.0

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

StartedAt: 2025-08-06 17:07:18 -0400 (Wed, 06 Aug 2025)

EndedAt: 2025-08-06 17:07:37 -0400 (Wed, 06 Aug 2025)

EllapsedTime: 18.2 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 ncRNAtools
###
##############################################################################
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* checking for file ‘ncRNAtools/DESCRIPTION’ ... OK
* preparing ‘ncRNAtools’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘ncRNAtools.Rmd’ using rmarkdown

Quitting from ncRNAtools.Rmd:144-146 [unnamed-chunk-5]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `curl::curl_fetch_memory()`:
! Timeout was reached [rnacentral.org]:
Connection timed out after 10003 milliseconds
---
Backtrace:
    ▆
 1. ├─ncRNAtools::rnaCentralRetrieveEntry("URS000037084E_1423")
 2. │ └─httr::GET(...)
 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 'ncRNAtools.Rmd' failed with diagnostics:
Timeout was reached [rnacentral.org]:
Connection timed out after 10003 milliseconds
--- failed re-building ‘ncRNAtools.Rmd’

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

Error: Vignette re-building failed.
Execution halted