Back to Multiple platform build/check report for BioC 3.20: simplified long |
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This page was generated on 2024-12-23 12:04 -0500 (Mon, 23 Dec 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4744 |
palomino8 | Windows Server 2022 Datacenter | x64 | 4.4.2 (2024-10-31 ucrt) -- "Pile of Leaves" | 4487 |
merida1 | macOS 12.7.5 Monterey | x86_64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4515 |
kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4467 |
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 2123/2289 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
TCGAbiolinks 2.34.0 (landing page) Tiago Chedraoui Silva
| nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | ERROR | skipped | |||||||||
palomino8 | Windows Server 2022 Datacenter / x64 | OK | ERROR | skipped | skipped | |||||||||
merida1 | macOS 12.7.5 Monterey / x86_64 | OK | ERROR | skipped | skipped | |||||||||
kjohnson1 | macOS 13.6.6 Ventura / arm64 | OK | ERROR | skipped | skipped | |||||||||
To the developers/maintainers of the TCGAbiolinks package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/TCGAbiolinks.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. |
Package: TCGAbiolinks |
Version: 2.34.0 |
Command: /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data --md5 TCGAbiolinks |
StartedAt: 2024-12-19 19:18:23 -0500 (Thu, 19 Dec 2024) |
EndedAt: 2024-12-19 19:23:51 -0500 (Thu, 19 Dec 2024) |
EllapsedTime: 327.6 seconds |
RetCode: 1 |
Status: ERROR |
PackageFile: None |
PackageFileSize: NA |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data --md5 TCGAbiolinks ### ############################################################################## ############################################################################## * checking for file ‘TCGAbiolinks/DESCRIPTION’ ... OK * preparing ‘TCGAbiolinks’: * checking DESCRIPTION meta-information ... OK * installing the package to build vignettes * creating vignettes ... ERROR --- re-building ‘analysis.Rmd’ using rmarkdown --- finished re-building ‘analysis.Rmd’ --- re-building ‘casestudy.Rmd’ using rmarkdown --- finished re-building ‘casestudy.Rmd’ --- re-building ‘classifiers.Rmd’ using rmarkdown --- finished re-building ‘classifiers.Rmd’ --- re-building ‘clinical.Rmd’ using rmarkdown --- finished re-building ‘clinical.Rmd’ --- re-building ‘download_prepare.Rmd’ using rmarkdown --- finished re-building ‘download_prepare.Rmd’ --- re-building ‘extension.Rmd’ using rmarkdown --- finished re-building ‘extension.Rmd’ --- re-building ‘index.Rmd’ using rmarkdown --- finished re-building ‘index.Rmd’ --- re-building ‘mutation.Rmd’ using rmarkdown --- finished re-building ‘mutation.Rmd’ --- re-building ‘query.Rmd’ using rmarkdown Quitting from lines 313-320 [unnamed-chunk-9] (query.Rmd) Error: processing vignette 'query.Rmd' failed with diagnostics: cannot open the connection --- failed re-building ‘query.Rmd’ --- re-building ‘stemness_score.Rmd’ using rmarkdown --- finished re-building ‘stemness_score.Rmd’ --- re-building ‘subtypes.Rmd’ using rmarkdown --- finished re-building ‘subtypes.Rmd’ SUMMARY: processing the following file failed: ‘query.Rmd’ Error: Vignette re-building failed. Execution halted