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This page was generated on 2025-10-27 12:45 -0400 (Mon, 27 Oct 2025).

HostnameOSArch (*)R versionInstalled pkgs
kjohnson3macOS 13.7.7 Venturaarm644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4637
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

Package 1448/2361HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
ndexr 1.31.0  (landing page)
Florian Auer
Snapshot Date: 2025-10-26 13:45 -0400 (Sun, 26 Oct 2025)
git_url: https://git.bioconductor.org/packages/ndexr
git_branch: devel
git_last_commit: 00bbe85
git_last_commit_date: 2025-04-15 11:11:22 -0400 (Tue, 15 Apr 2025)
kjohnson3macOS 13.7.7 Ventura / arm64  OK    ERROR  skippedskipped

BUILD results for ndexr on kjohnson3

To the developers/maintainers of the ndexr package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/ndexr.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: ndexr
Version: 1.31.0
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data ndexr
StartedAt: 2025-10-26 17:22:30 -0400 (Sun, 26 Oct 2025)
EndedAt: 2025-10-26 17:23:02 -0400 (Sun, 26 Oct 2025)
EllapsedTime: 32.3 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 ndexr
###
##############################################################################
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* checking for file ‘ndexr/DESCRIPTION’ ... OK
* preparing ‘ndexr’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘ndexr-vignette.Rmd’ using rmarkdown

Quitting from ndexr-vignette.Rmd:99-105 [unnamed-chunk-6]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `curl::curl_fetch_memory()`:
! Timeout was reached [www.ndexbio.org]:
Resolving timed out after 10002 milliseconds
---
Backtrace:
    ▆
 1. ├─ndexr::ndex_connect()
 2. │ ├─ndexr:::ndex_helper_httpResponseHandler(...)
 3. │ └─httr::GET(url = url, config = auth_param)
 4. │   └─httr:::request_perform(req, hu$handle$handle)
 5. │     ├─httr:::request_fetch(req$output, req$url, handle)
 6. │     └─httr:::request_fetch.write_memory(req$output, req$url, handle)
 7. │       └─curl::curl_fetch_memory(url, handle = handle)
 8. └─curl:::raise_libcurl_error(...)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'ndexr-vignette.Rmd' failed with diagnostics:
Timeout was reached [www.ndexbio.org]:
Resolving timed out after 10002 milliseconds
--- failed re-building ‘ndexr-vignette.Rmd’

SUMMARY: processing the following file failed:
  ‘ndexr-vignette.Rmd’

Error: Vignette re-building failed.
Execution halted