############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.21-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data 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 [16:27:43.306] Loading definitions from package biodb version 1.16.1. INFO [16:27:44.831] Loading definitions from package biodbChebi version 1.14.0. INFO [16:27:44.862] Loading definitions from package biodbHmdb version 1.14.0. INFO [16:27:44.892] Loading definitions from package biodbNcbi version 1.12.0. INFO [16:27:44.916] Loading definitions from package biodbNci version 1.12.0. INFO [16:27:44.932] Loading definitions from package biodbUniprot version 1.14.0. INFO [16:27:45.040] 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