############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data CINdex ### ############################################################################## ############################################################################## * checking for file ‘CINdex/DESCRIPTION’ ... OK * preparing ‘CINdex’: * checking DESCRIPTION meta-information ... OK * installing the package to build vignettes * creating vignettes ... ERROR --- re-building ‘HowToDownloadCytobandInfo.Rmd’ using rmarkdown Loading required package: stats4 Loading required package: BiocGenerics Attaching package: 'BiocGenerics' The following objects are masked from 'package:stats': IQR, mad, sd, var, xtabs The following objects are masked from 'package:base': Filter, Find, Map, Position, Reduce, anyDuplicated, append, as.data.frame, basename, cbind, colnames, dirname, do.call, duplicated, eval, evalq, get, grep, grepl, intersect, is.unsorted, lapply, mapply, match, mget, order, paste, pmax, pmax.int, pmin, pmin.int, rank, rbind, rownames, sapply, setdiff, sort, table, tapply, union, unique, unsplit, which.max, which.min Loading required package: S4Vectors Attaching package: 'S4Vectors' The following objects are masked from 'package:base': I, expand.grid, unname Loading required package: IRanges Loading required package: GenomeInfoDb Quitting from lines 19-28 (HowToDownloadCytobandInfo.Rmd) Error: processing vignette 'HowToDownloadCytobandInfo.Rmd' failed with diagnostics: there is no package called 'rtracklayer' --- failed re-building ‘HowToDownloadCytobandInfo.Rmd’ --- re-building ‘PrepareInputData.Rmd’ using rmarkdown Loading required package: BiocFileCache Loading required package: dbplyr Quitting from lines 33-45 (PrepareInputData.Rmd) Error: processing vignette 'PrepareInputData.Rmd' failed with diagnostics: there is no package called 'pd.genomewidesnp.6' --- failed re-building ‘PrepareInputData.Rmd’ --- re-building ‘CINdex.Rnw’ using knitr --- finished re-building ‘CINdex.Rnw’ SUMMARY: processing the following files failed: ‘HowToDownloadCytobandInfo.Rmd’ ‘PrepareInputData.Rmd’ Error: Vignette re-building failed. Execution halted