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

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo1	Linux (Ubuntu 24.04.3 LTS)	x86_64	R Under development (unstable) (2026-01-15 r89304) -- "Unsuffered Consequences"	4808
kjohnson3	macOS 13.7.7 Ventura	arm64	R Under development (unstable) (2026-01-15 r89304) -- "Unsuffered Consequences"	4542
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BUILD results for cBioPortalData on nebbiolo1

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

Version: 2.23.2

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

StartedAt: 2026-01-21 16:41:46 -0500 (Wed, 21 Jan 2026)

EndedAt: 2026-01-21 16:42:56 -0500 (Wed, 21 Jan 2026)

EllapsedTime: 70.1 seconds

RetCode: 1

Status: ERROR

PackageFile: None

PackageFileSize: NA

Command output

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

Quitting from cBioPortalData.Rmd:118-122 [cbiodatapack]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `utils::download.file()`:
! 'wget' call had nonzero exit status
---
Backtrace:
    ▆
 1. └─cBioPortalData::cBioDataPack("laml_tcga", ask = FALSE)
 2.   └─cBioPortalData::downloadStudy(...)
 3.     └─base::tryCatch(...)
 4.       └─base (local) tryCatchList(expr, classes, parentenv, handlers)
 5.         └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])
 6.           └─value[[3L]](cond)
 7.             └─cBioPortalData:::.altDownload(url_file, cancer_study_id, verbose = TRUE)
 8.               └─utils::download.file(...)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'cBioPortalData.Rmd' failed with diagnostics:
'wget' call had nonzero exit status
--- failed re-building ‘cBioPortalData.Rmd’

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

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

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

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

Error: Vignette re-building failed.
Execution halted