Back to Workflows build report for BioC 3.12

BUILD report for variants on malbec1

This page was generated on 2021-01-15 15:45:13 -0500 (Fri, 15 Jan 2021).

TO THE DEVELOPERS/MAINTAINERS OF THE variants PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page.
Package 28/28HostnameOS / ArchINSTALLBUILD
variants 1.14.0
Bioconductor Package Maintainer
Snapshot Date: 2021-01-15 09:00:03 -0500 (Fri, 15 Jan 2021)
URL: https://git.bioconductor.org/packages/variants
Branch: RELEASE_3_12
Last Commit: c1172a5
Last Changed Date: 2020-10-27 09:41:46 -0500 (Tue, 27 Oct 2020)
malbec1 Linux (Ubuntu 18.04.5 LTS) / x86_64  OK [ ERROR ]
nebbiolo1 Linux (Ubuntu 20.04.1 LTS) / x86_64  OK  ERROR 

Summary

Package: variants
Version: 1.14.0
Command: /home/biocbuild/bbs-3.12-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data variants
StartedAt: 2021-01-15 09:35:54 -0500 (Fri, 15 Jan 2021)
EndedAt: 2021-01-15 09:37:03 -0500 (Fri, 15 Jan 2021)
EllapsedTime: 69.1 seconds
RetCode: 1
Status:  ERROR 
PackageFile: None
PackageFileSize: NA

Command output

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### Running command:
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###   /home/biocbuild/bbs-3.12-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data variants
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* checking for file ‘variants/DESCRIPTION’ ... OK
* preparing ‘variants’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘Annotating_Genomic_Variants.Rmd’ using rmarkdown
Quitting from lines 234-237 (Annotating_Genomic_Variants.Rmd) 
Error: processing vignette 'Annotating_Genomic_Variants.Rmd' failed with diagnostics:
the transcripts in 'transcripts' are on chromosomes that are not in 'x'
--- failed re-building ‘Annotating_Genomic_Variants.Rmd’

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

Error: Vignette re-building failed.
Execution halted