Back to Workflows build report for BioC 3.21

This page was generated on 2025-01-31 16:30 -0500 (Fri, 31 Jan 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.1 LTS)x86_64R Under development (unstable) (2025-01-20 r87609) -- "Unsuffered Consequences" 4703
palomino7Windows Server 2022 Datacenterx64R Under development (unstable) (2025-01-21 r87610 ucrt) -- "Unsuffered Consequences" 4466
lconwaymacOS 12.7.1 Montereyx86_64R Under development (unstable) (2025-01-22 r87618) -- "Unsuffered Consequences" 4477
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 29/30HostnameOS / ArchINSTALLBUILD
TCGAWorkflow 1.31.0  (landing page)
Tiago Chedraoui Silva
Snapshot Date: 2025-01-31 12:45 -0500 (Fri, 31 Jan 2025)
git_url: https://git.bioconductor.org/packages/TCGAWorkflow
git_branch: devel
git_last_commit: c327921
git_last_commit_date: 2024-10-29 10:02:54 -0500 (Tue, 29 Oct 2024)
nebbiolo1Linux (Ubuntu 24.04.1 LTS) / x86_64  OK    ERROR  
palomino7Windows Server 2022 Datacenter / x64  OK    ERROR  
lconwaymacOS 12.7.1 Monterey / x86_64  OK    ERROR  

BUILD results for TCGAWorkflow on palomino7

To the developers/maintainers of the TCGAWorkflow 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: TCGAWorkflow
Version: 1.31.0
Command: chmod a+r TCGAWorkflow -R && E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data TCGAWorkflow
StartedAt: 2025-01-31 13:17:38 -0500 (Fri, 31 Jan 2025)
EndedAt: 2025-01-31 13:19:12 -0500 (Fri, 31 Jan 2025)
EllapsedTime: 93.9 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

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### Running command:
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###   chmod a+r TCGAWorkflow -R && E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data TCGAWorkflow
###
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* checking for file 'TCGAWorkflow/DESCRIPTION' ... OK
* preparing 'TCGAWorkflow':
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building 'TCGAWorkflow.Rmd' using rmarkdown

Quitting from lines 509-527 [unnamed-chunk-8] (TCGAWorkflow.Rmd)
Error: processing vignette 'TCGAWorkflow.Rmd' failed with diagnostics:
Supplied 617 items to be assigned to 1175 items of column 'submitter_id'. If you wish to 'recycle' the RHS please use rep() to make this intent clear to readers of your code.
--- failed re-building 'TCGAWorkflow.Rmd'

SUMMARY: processing the following file failed:
  'TCGAWorkflow.Rmd'

Error: Vignette re-building failed.
Execution halted