############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data --md5 biodbUniprot ### ############################################################################## ############################################################################## * checking for file ‘biodbUniprot/DESCRIPTION’ ... OK * preparing ‘biodbUniprot’: * checking DESCRIPTION meta-information ... OK * installing the package to build vignettes * creating vignettes ... ERROR --- re-building ‘biodbUniprot.Rmd’ using rmarkdown INFO [16:24:47.685] Loading definitions from package biodb version 1.17.1. INFO [16:24:49.202] Loading definitions from package biodbChebi version 1.15.1. INFO [16:24:49.232] Loading definitions from package biodbHmdb version 1.15.1. INFO [16:24:49.263] Loading definitions from package biodbNcbi version 1.13.1. INFO [16:24:49.285] Loading definitions from package biodbNci version 1.13.1. INFO [16:24:49.292] Loading definitions from package biodbUniprot version 1.15.1. INFO [16:24:49.415] Load 2 contents, from /home/biocbuild/.cache/R/biodb/uniprot-958d776f924f3e7a3bae586fa731b40c. Quitting from biodbUniprot.Rmd:83-86 [unnamed-chunk-6] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error in `conn$wsSearch()`: ! object 'BiodbUrl' not found --- Backtrace: ▆ 1. └─conn$wsSearch(...) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'biodbUniprot.Rmd' failed with diagnostics: object 'BiodbUrl' not found --- failed re-building ‘biodbUniprot.Rmd’ SUMMARY: processing the following file failed: ‘biodbUniprot.Rmd’ Error: Vignette re-building failed. Execution halted