############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data biodbNcbi ### ############################################################################## ############################################################################## * checking for file ‘biodbNcbi/DESCRIPTION’ ... OK * preparing ‘biodbNcbi’: * checking DESCRIPTION meta-information ... OK * installing the package to build vignettes * creating vignettes ... ERROR --- re-building ‘biodbNcbi.Rmd’ using rmarkdown INFO [20:04:37.201] Loading definitions from package biodb version 1.16.1. INFO [20:04:39.352] Loading definitions from package biodbChebi version 1.14.0. INFO [20:04:39.386] Loading definitions from package biodbHmdb version 1.14.0. INFO [20:04:39.422] Loading definitions from package biodbNcbi version 1.12.0. INFO [20:04:39.450] Loading definitions from package biodbNci version 1.12.0. INFO [20:04:39.459] Loading definitions from package biodbUniprot version 1.14.0. Quitting from biodbNcbi.Rmd:72-74 [unnamed-chunk-5] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: ! 'BiodbUrl' is not an exported object from 'namespace:biodb' --- Backtrace: ▆ 1. └─gene$getNbEntries() 2. └─private$doGetNbEntries(count = count) 3. └─self$wsEinfo(retfmt = "parsed") ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'biodbNcbi.Rmd' failed with diagnostics: 'BiodbUrl' is not an exported object from 'namespace:biodb' --- failed re-building ‘biodbNcbi.Rmd’ SUMMARY: processing the following file failed: ‘biodbNcbi.Rmd’ Error: Vignette re-building failed. Execution halted