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This page was generated on 2026-04-07 15:41 -0400 (Tue, 07 Apr 2026).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.3 LTS)x86_644.5.2 (2025-10-31) -- "[Not] Part in a Rumble" 4897
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 93/435HostnameOS / ArchINSTALLBUILDCHECK
depmap 1.24.0  (landing page)
Laurent Gatto
Snapshot Date: 2026-04-07 08:30 -0400 (Tue, 07 Apr 2026)
git_url: https://git.bioconductor.org/packages/depmap
git_branch: RELEASE_3_22
git_last_commit: fbdcdfa
git_last_commit_date: 2025-10-29 10:01:43 -0400 (Wed, 29 Oct 2025)
nebbiolo2Linux (Ubuntu 24.04.3 LTS) / x86_64  OK    ERROR  skipped

BUILD results for depmap on nebbiolo2

To the developers/maintainers of the depmap 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: depmap
Version: 1.24.0
Command: /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data depmap
StartedAt: 2026-04-07 11:15:21 -0400 (Tue, 07 Apr 2026)
EndedAt: 2026-04-07 11:31:08 -0400 (Tue, 07 Apr 2026)
EllapsedTime: 947.3 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 depmap
###
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* checking for file ‘depmap/DESCRIPTION’ ... OK
* preparing ‘depmap’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘depmap.Rmd’ using rmarkdown

Quitting from depmap.Rmd:145-147 [unnamed-chunk-7]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `value[[3L]]()`:
! failed to connect
  reason: Failed to perform HTTP request.
Caused by error in `curl::curl_fetch_memory()`:
! Timeout was reached [bioconductor.org]:
Operation too slow. Less than 1 bytes/sec transferred the last 600 seconds
  Consider rerunning with 'localHub=TRUE'
---
Backtrace:
    ▆
 1. └─depmap::depmap_copyNumber()
 2.   └─depmap:::depmap_data_loading("copyNumber")
 3.     └─ExperimentHub::ExperimentHub()
 4.       └─AnnotationHub::.Hub(...)
 5.         └─base::tryCatch(...)
 6.           └─base (local) tryCatchList(expr, classes, parentenv, handlers)
 7.             └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])
 8.               └─value[[3L]](cond)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'depmap.Rmd' failed with diagnostics:
failed to connect
  reason: Failed to perform HTTP request.
Caused by error in `curl::curl_fetch_memory()`:
! Timeout was reached [bioconductor.org]:
Operation too slow. Less than 1 bytes/sec transferred the last 600 seconds
  Consider rerunning with 'localHub=TRUE'
--- failed re-building ‘depmap.Rmd’

--- re-building ‘using_depmap.Rmd’ using rmarkdown
--- finished re-building ‘using_depmap.Rmd’

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

Error: Vignette re-building failed.
Execution halted