############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R/bin/R CMD build --keep-empty-dirs --no-resave-data maser ### ############################################################################## ############################################################################## * checking for file ‘maser/DESCRIPTION’ ... OK * preparing ‘maser’: * checking DESCRIPTION meta-information ... OK * installing the package to build vignettes * creating vignettes ... ERROR --- re-building ‘Introduction.Rmd’ using rmarkdown --- finished re-building ‘Introduction.Rmd’ --- re-building ‘Protein_mapping.Rmd’ using rmarkdown Quitting from Protein_mapping.Rmd:160-165 [unnamed-chunk-13] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error in `download.file()`: ! download from 'https://ftp.uniprot.org/pub/databases/uniprot/current_release/knowledgebase/genome_annotation_tracks/UP000005640_9606_beds/UP000005640_9606_domain.bed' failed --- Backtrace: ▆ 1. └─maser::plotUniprotKBFeatures(...) 2. └─maser:::createUniprotKBtracks(...) 3. └─parallel::mclapply(...) 4. └─base::lapply(X = X, FUN = FUN, ...) 5. └─maser (local) FUN(X[[i]], ...) 6. └─maser:::createGRangesUniprotKBtrack(features[i]) 7. └─data.table::fread(...) 8. └─utils::download.file(...) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'Protein_mapping.Rmd' failed with diagnostics: download from 'https://ftp.uniprot.org/pub/databases/uniprot/current_release/knowledgebase/genome_annotation_tracks/UP000005640_9606_beds/UP000005640_9606_domain.bed' failed --- failed re-building ‘Protein_mapping.Rmd’ SUMMARY: processing the following file failed: ‘Protein_mapping.Rmd’ Error: Vignette re-building failed. Execution halted