Anand Mayakonda
| Snapshot Date: 2022-07-06 14:00:06 -0400 (Wed, 06 Jul 2022) |
| git_url: https://git.bioconductor.org/packages/maftools |
| git_branch: master |
| git_last_commit: 07aa856 |
| git_last_commit_date: 2022-04-26 11:33:50 -0400 (Tue, 26 Apr 2022) |
| Back to Multiple platform build/check report for BioC 3.16 |
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This page was generated on 2022-07-07 11:11:25 -0400 (Thu, 07 Jul 2022).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 20.04.4 LTS) | x86_64 | 4.2.0 Patched (2022-06-02 r82447) -- "Vigorous Calisthenics" | 4343 |
| palomino4 | Windows Server 2022 Datacenter | x64 | 4.2.0 Patched (2022-06-02 r82447 ucrt) -- "Vigorous Calisthenics" | 4148 |
| lconway | macOS 12.2.1 Monterey | x86_64 | 4.2.0 Patched (2022-05-29 r82424) -- "Vigorous Calisthenics" | 4160 |
| kjohnson | macOS 12.4 Monterey | arm64 | 4.2.0 Patched (2022-06-09 r82473) -- "Vigorous Calisthenics" | 3115 |
| 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 maftools package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/maftools.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 1053/2124 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| maftools 2.13.0 (landing page) Anand Mayakonda
| nebbiolo2 | Linux (Ubuntu 20.04.4 LTS) / x86_64 | OK | OK | OK | | ||||||||
| palomino4 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | | ||||||||
| lconway | macOS 12.2.1 Monterey / x86_64 | OK | OK | OK | OK | | ||||||||
| kjohnson | macOS 12.4 Monterey / arm64 | ERROR | ERROR | skipped | skipped | |||||||||
| Package: maftools |
| Version: 2.13.0 |
| Command: /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data maftools |
| StartedAt: 2022-07-06 23:36:39 -0400 (Wed, 06 Jul 2022) |
| EndedAt: 2022-07-06 23:37:31 -0400 (Wed, 06 Jul 2022) |
| EllapsedTime: 52.5 seconds |
| RetCode: 1 |
| Status: ERROR |
| PackageFile: None |
| PackageFileSize: NA |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data maftools ### ############################################################################## ############################################################################## * checking for file ‘maftools/DESCRIPTION’ ... OK * preparing ‘maftools’: * checking DESCRIPTION meta-information ... OK * cleaning src * installing the package to build vignettes * creating vignettes ... ERROR --- re-building ‘cancer_hotspots.Rmd’ using rmarkdown --- finished re-building ‘cancer_hotspots.Rmd’ --- re-building ‘cnv_analysis.Rmd’ using rmarkdown --- finished re-building ‘cnv_analysis.Rmd’ --- re-building ‘maftools.Rmd’ using rmarkdown Capture size [TCGA]: 35.8 Capture size [Input]: 50 Performing pairwise t-test for differences in mutation burden (per MB).. Warning in doTryCatch(return(expr), name, parentenv, handler) : "axes" is not a graphical parameter Estimating background scores from synonymous variants.. Not enough genes to build background. Using predefined values. (Mean = 0.279; SD = 0.13) Estimating cluster scores from non-syn variants.. Comapring with background model and estimating p-values.. Done ! Warning in doTryCatch(return(expr), name, parentenv, handler) : "axes" is not a graphical parameter Warning in doTryCatch(return(expr), name, parentenv, handler) : "axes" is not a graphical parameter Gene: PML 9 transcripts available. Use arguments refSeqID or proteinID to manually specify tx name. Using longer transcript NM_033238 for now. 9 transcripts available. Use arguments refSeqID or proteinID to manually specify tx name. Using longer transcript NM_033238 for now. Quitting from lines 482-485 (maftools.Rmd) Error: processing vignette 'maftools.Rmd' failed with diagnostics: there is no package called 'BSgenome.Hsapiens.UCSC.hg19' --- failed re-building ‘maftools.Rmd’ --- re-building ‘oncoplots.Rmd’ using rmarkdown --- finished re-building ‘oncoplots.Rmd’ SUMMARY: processing the following file failed: ‘maftools.Rmd’ Error: Vignette re-building failed. Execution halted