Multiple platform build/check report for BioC 3.23 - BUILD results for HiCool on nebbiolo1

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"	4874
kjohnson3	macOS 13.7.7 Ventura	arm64	R Under development (unstable) (2025-11-04 r88984) -- "Unsuffered Consequences"	4582
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BUILD results for HiCool on nebbiolo1

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

Version: 1.11.0

Command: /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data HiCool

StartedAt: 2025-12-12 18:12:09 -0500 (Fri, 12 Dec 2025)

EndedAt: 2025-12-12 18:12:54 -0500 (Fri, 12 Dec 2025)

EllapsedTime: 45.0 seconds

RetCode: 1

Status: ERROR

PackageFile: None

PackageFileSize: NA

Command output

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###
### Running command:
###
###   /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data HiCool
###
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* checking for file ‘HiCool/DESCRIPTION’ ... OK
* preparing ‘HiCool’:
* checking DESCRIPTION meta-information ... OK
* installing the package (it is needed to build vignettes)
* creating vignettes ... ERROR
--- re-building ‘HiCool.Rmd’ using rmarkdown

Quitting from HiCool.Rmd:70-80 [unnamed-chunk-3]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<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]:
SSL connection timeout
  Consider rerunning with 'localHub=TRUE'
---
Backtrace:
     ▆
  1. ├─HiCool::HiCool(...)
  2. │ └─base::normalizePath(r1)
  3. │   └─base::path.expand(path)
  4. └─HiContactsData::HiContactsData(sample = "yeast_wt", format = "fastq_R1")
  5.   └─ExperimentHub::ExperimentHub()
  6.     └─AnnotationHub::.Hub(...)
  7.       └─base::tryCatch(...)
  8.         └─base (local) tryCatchList(expr, classes, parentenv, handlers)
  9.           └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])
 10.             └─value[[3L]](cond)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'HiCool.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]:
SSL connection timeout
  Consider rerunning with 'localHub=TRUE'
--- failed re-building ‘HiCool.Rmd’

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

Error: Vignette re-building failed.
Execution halted