############################################################################## ############################################################################## ### ### Running command: ### ### chmod a+r dualKS -R && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data dualKS ### ############################################################################## ############################################################################## * checking for file 'dualKS/DESCRIPTION' ... OK * preparing 'dualKS': * checking DESCRIPTION meta-information ... OK * installing the package to build vignettes * creating vignettes ... ERROR --- re-building 'dualKS.rnw' using Sweave Loading required package: Biobase Loading required package: BiocGenerics Loading required package: parallel Attaching package: 'BiocGenerics' The following objects are masked from 'package:parallel': clusterApply, clusterApplyLB, clusterCall, clusterEvalQ, clusterExport, clusterMap, parApply, parCapply, parLapply, parLapplyLB, parRapply, parSapply, parSapplyLB 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: affy Warning in if (class(eset) == "matrix") { : the condition has length > 1 and only the first element will be used Warning in if (class(eset) == "matrix") { : the condition has length > 1 and only the first element will be used Warning in if (class(eset) == "matrix") { : the condition has length > 1 and only the first element will be used Warning in if (class(eset) == "matrix") { : the condition has length > 1 and only the first element will be used Warning in if (class(eset) == "matrix") { : the condition has length > 1 and only the first element will be used Error: processing vignette 'dualKS.rnw' failed with diagnostics: chunk 22 Error in eval(expr, .GlobalEnv) : object 'pv.f' not found --- failed re-building 'dualKS.rnw' SUMMARY: processing the following file failed: 'dualKS.rnw' Error: Vignette re-building failed. Execution halted