Build/check report for BioC 3.22 - BUILD results for maskBAD on nebbiolo2

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo2	Linux (Ubuntu 24.04.3 LTS)	x86_64	4.5.2 (2025-10-31) -- "[Not] Part in a Rumble"	4889
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BUILD results for maskBAD on nebbiolo2

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

Version: 1.54.0

Command: /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data --md5 maskBAD

StartedAt: 2026-02-12 18:58:20 -0500 (Thu, 12 Feb 2026)

EndedAt: 2026-02-12 19:01:37 -0500 (Thu, 12 Feb 2026)

EllapsedTime: 197.2 seconds

RetCode: 1

Status: ERROR

PackageFile: None

PackageFileSize: NA

Command output

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### Running command:
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###   /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data --md5 maskBAD
###
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* checking for file ‘maskBAD/DESCRIPTION’ ... OK
* preparing ‘maskBAD’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘maskBAD.Rnw’ using Sweave
Loading required package: gcrma
Loading required package: affy
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: Biobase
Welcome to Bioconductor

    Vignettes contain introductory material; view with
    'browseVignettes()'. To cite Bioconductor, see
    'citation("Biobase")', and for packages 'citation("pkgname")'.

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Loading required package: AnnotationDbi
Loading required package: stats4
Loading required package: IRanges
Loading required package: S4Vectors

Attaching package: ‘S4Vectors’

The following object is masked from ‘package:utils’:

    findMatches

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

    I, expand.grid, unname

Warning in readLines(biocURL) :
  URL 'https://www.bioconductor.org/main.html': status was 'SSL connect error'

Error: processing vignette 'maskBAD.Rnw' failed with diagnostics:
 chunk 16 (label = grmaEx1) 
Error in getCDF(cdfpackagename) : 
  The current operation could not access the Bioconductor repository. Please check your internet connection, and report further problems to bioconductor@stat.math.ethz.ch

--- failed re-building ‘maskBAD.Rnw’

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

Error: Vignette re-building failed.
Execution halted