############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data PREDA ### ############################################################################## ############################################################################## * checking for file ‘PREDA/DESCRIPTION’ ... OK * preparing ‘PREDA’: * checking DESCRIPTION meta-information ... OK * installing the package to build vignettes * creating vignettes ... ERROR --- re-building ‘PREDAclasses.Rnw’ using Sweave --- finished re-building ‘PREDAclasses.Rnw’ --- re-building ‘PREDAtutorial.Rnw’ using Sweave Loading required package: PREDAsampledata Warning in library(package, lib.loc = lib.loc, character.only = TRUE, logical.return = TRUE, : there is no package called ‘PREDAsampledata’ Loading required package: PREDA Loading required package: Biobase 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 Welcome to Bioconductor Vignettes contain introductory material; view with 'browseVignettes()'. To cite Bioconductor, see 'citation("Biobase")', and for packages 'citation("pkgname")'. Loading required package: lokern Loading required package: multtest Loading required package: annotate Loading required package: AnnotationDbi Loading required package: stats4 Loading required package: IRanges Loading required package: S4Vectors Attaching package: ‘S4Vectors’ The following objects are masked from ‘package:base’: I, expand.grid, unname Loading required package: XML Warning in file(file, "rt") : file("") only supports open = "w+" and open = "w+b": using the former Error: processing vignette 'PREDAtutorial.Rnw' failed with diagnostics: chunk 3 Error in read.table(infofile, sep = "\t", header = TRUE) : no lines available in input --- failed re-building ‘PREDAtutorial.Rnw’ SUMMARY: processing the following file failed: ‘PREDAtutorial.Rnw’ Error: Vignette re-building failed. Execution halted