############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data --md5 VariantAnnotation ### ############################################################################## ############################################################################## * checking for file ‘VariantAnnotation/DESCRIPTION’ ... OK * preparing ‘VariantAnnotation’: * checking DESCRIPTION meta-information ... OK * cleaning src * installing the package to build vignettes * creating vignettes ... ERROR --- re-building ‘VariantAnnotation.Rmd’ using rmarkdown [W::bcf_hdr_check_sanity] GL should be declared as Number=G --- finished re-building ‘VariantAnnotation.Rmd’ --- re-building ‘ensemblVEP.Rmd’ using rmarkdown Quitting from ensemblVEP.Rmd:53-58 [lksnv] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error in `post_Hs_region()`: ! Internal Server Error (HTTP 500). --- Backtrace: ▆ 1. └─VariantAnnotation::vep_by_region(...) 2. └─VariantAnnotation::post_Hs_region(...) 3. └─httr::stop_for_status(ans) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'ensemblVEP.Rmd' failed with diagnostics: Internal Server Error (HTTP 500). --- failed re-building ‘ensemblVEP.Rmd’ --- re-building ‘filterVcf.Rmd’ using rmarkdown --- finished re-building ‘filterVcf.Rmd’ SUMMARY: processing the following file failed: ‘ensemblVEP.Rmd’ Error: Vignette re-building failed. Execution halted