############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data --md5 cqn ### ############################################################################## ############################################################################## * checking for file ‘cqn/DESCRIPTION’ ... OK * preparing ‘cqn’: * checking DESCRIPTION meta-information ... OK * installing the package to build vignettes * creating vignettes ... ERROR --- re-building ‘cqn.Rnw’ using Sweave Loading required package: mclust Package 'mclust' version 6.1.1 Type 'citation("mclust")' for citing this R package in publications. Loading required package: nor1mix Loading required package: preprocessCore Loading required package: splines Loading required package: quantreg Loading required package: SparseM Warning in norMix(mu = mix.param$mean, sig2 = mix.param$variance$sigmasq, : The use of 'sig2' is deprecated; do specify 'sigma' (= sqrt(sig2)) instead Loading required package: limma Attaching package: ‘limma’ The following object is masked from ‘package:mclust’: logsumexp Error: processing vignette 'cqn.Rnw' failed with diagnostics: chunk 19 Error in decideTestsDGE(elrt.cqn) : could not find function "decideTestsDGE" --- failed re-building ‘cqn.Rnw’ SUMMARY: processing the following file failed: ‘cqn.Rnw’ Error: Vignette re-building failed. Execution halted