Build/check report for BioC 3.22 - BUILD results for CellMapper on kjohnson3

Hostname	OS	Arch (*)	R version	Installed pkgs
kjohnson3	macOS 13.7.7 Ventura	arm64	4.5.1 Patched (2025-09-10 r88807) -- "Great Square Root"	4637
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BUILD results for CellMapper on kjohnson3

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

Version: 1.35.0

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

StartedAt: 2025-10-26 15:53:03 -0400 (Sun, 26 Oct 2025)

EndedAt: 2025-10-26 15:54:03 -0400 (Sun, 26 Oct 2025)

EllapsedTime: 60.6 seconds

RetCode: 1

Status: ERROR

PackageFile: None

PackageFileSize: NA

Command output

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### Running command:
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###   /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data CellMapper
###
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* checking for file ‘CellMapper/DESCRIPTION’ ... OK
* preparing ‘CellMapper’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘CellMapper.Rnw’ using Sweave
Loading required package: BiocGenerics
Loading required package: generics

Attaching package: ‘generics’

The following objects are masked from ‘package:base’:

    as.difftime, as.factor, as.ordered, intersect, is.element, setdiff,
    setequal, union


Attaching package: ‘BiocGenerics’

The following objects are masked from ‘package:stats’:

    IQR, mad, sd, var, xtabs

The following objects are masked from ‘package:base’:

    Filter, Find, Map, Position, Reduce, anyDuplicated, aperm, append,
    as.data.frame, basename, cbind, colnames, dirname, do.call,
    duplicated, eval, evalq, get, grep, grepl, is.unsorted, lapply,
    mapply, match, mget, order, paste, pmax, pmax.int, pmin, pmin.int,
    rank, rbind, rownames, sapply, saveRDS, table, tapply, unique,
    unsplit, which.max, which.min

Loading required package: AnnotationHub
Loading required package: BiocFileCache
Loading required package: dbplyr
Cannot connect to ExperimentHub server, using 'localHub=TRUE' instead
Error while performing HEAD request.
   Proceeding without cache information.
Warning: download failed
  web resource path: ‘https://experimenthub.bioconductor.org/metadata/experimenthub.sqlite3’
  local file path: ‘/Users/biocbuild/Library/Caches/org.R-project.R/R/ExperimentHub/file911c2e3409e6’
  reason: Failed to perform HTTP request.
Caused by error in `curl::curl_fetch_disk()`:
! SSL connect error [experimenthub.bioconductor.org]:
TLS connect error: error:00000000:lib(0):func(0):reason(0)
Warning: bfcdownload() failed
  rid: BFC1
  file: ‘https://experimenthub.bioconductor.org/metadata/experimenthub.sqlite3’
  reason: download failed
Warning: Could not check database for updates.
  Database source currently unreachable.
  This should only be a temporary interruption. 
  Using previously cached version.

Error: processing vignette 'CellMapper.Rnw' failed with diagnostics:
 chunk 3 
Error in value[[3L]](cond) : failed to connect
  reason: Failed to perform HTTP request.
Caused by error in `curl::curl_fetch_memory()`:
! SSL connect error [bioconductor.org]:
TLS connect error: error:00000000:lib(0):func(0):reason(0)
  Consider rerunning with 'localHub=TRUE'

--- failed re-building ‘CellMapper.Rnw’

SUMMARY: processing the following file failed:
  ‘CellMapper.Rnw’

Error: Vignette re-building failed.
Execution halted