| Back to Build/check report for BioC 3.17 |
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This page was generated on 2023-02-08 01:15:32 -0000 (Wed, 08 Feb 2023).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| kunpeng1 | Linux (Ubuntu 22.04.1 LTS) | aarch64 | R Under development (unstable) (2023-01-14 r83615) -- "Unsuffered Consequences" | 4164 |
| 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 | ||||
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To the developers/maintainers of the TCGAbiolinks package: - Please 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 How and When does the builder pull? When will my changes propagate? for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 2014/2164 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| TCGAbiolinks 2.27.0 (landing page) Tiago Chedraoui Silva
| kunpeng1 | Linux (Ubuntu 22.04.1 LTS) / aarch64 | OK | ERROR | skipped | |||||||||
| Package: TCGAbiolinks |
| Version: 2.27.0 |
| Command: /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data TCGAbiolinks |
| StartedAt: 2023-02-06 15:37:33 -0000 (Mon, 06 Feb 2023) |
| EndedAt: 2023-02-06 15:46:55 -0000 (Mon, 06 Feb 2023) |
| EllapsedTime: 561.8 seconds |
| RetCode: 1 |
| Status: ERROR |
| PackageFile: None |
| PackageFileSize: NA |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data 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 Quitting from lines 100-107 (clinical.Rmd) Error: processing vignette 'clinical.Rmd' failed with diagnostics: Timeout was reached: [api.gdc.cancer.gov] Failed to connect to api.gdc.cancer.gov port 443 after 5204 ms: Connection timed out --- failed 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 ‘gui.Rmd’ using rmarkdown --- finished re-building ‘gui.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 172-185 (query.Rmd) Error: processing vignette 'query.Rmd' failed with diagnostics: Timeout was reached: [api.gdc.cancer.gov] Failed to connect to api.gdc.cancer.gov port 443 after 5203 ms: Connection timed out --- 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 files failed: ‘clinical.Rmd’ ‘query.Rmd’ Error: Vignette re-building failed. Execution halted