############################################################################## ############################################################################## ### ### Running command: ### ### rm -rf DESeq2.buildbin-libdir && mkdir DESeq2.buildbin-libdir && D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD INSTALL --build --library=DESeq2.buildbin-libdir DESeq2_1.35.0.tar.gz ### ############################################################################## ############################################################################## * installing *source* package 'DESeq2' ... ** using staged installation ** libs "C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I'D:/biocbuild/bbs-3.15-bioc/R/library/Rcpp/include' -I'D:/biocbuild/bbs-3.15-bioc/R/library/RcppArmadillo/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition -c DESeq2.cpp -o DESeq2.o "C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I'D:/biocbuild/bbs-3.15-bioc/R/library/Rcpp/include' -I'D:/biocbuild/bbs-3.15-bioc/R/library/RcppArmadillo/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition -c RcppExports.cpp -o RcppExports.o C:/rtools40/mingw64/bin/g++ -std=gnu++11 -shared -s -static-libgcc -o DESeq2.dll tmp.def DESeq2.o RcppExports.o -LD:/biocbuild/bbs-3.15-bioc/R/bin/x64 -lRlapack -LD:/biocbuild/bbs-3.15-bioc/R/bin/x64 -lRblas -lgfortran -lm -lquadmath -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LD:/biocbuild/bbs-3.15-bioc/R/bin/x64 -lR installing to D:/biocbuild/bbs-3.15-bioc/meat/DESeq2.buildbin-libdir/00LOCK-DESeq2/00new/DESeq2/libs/x64 ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices converting help for package 'DESeq2' finding HTML links ... done DESeq html finding level-2 HTML links ... done DESeq2-package html DESeqDataSet html DESeqResults html DESeqTransform html coef html collapseReplicates html counts html design html dispersionFunction html dispersions html estimateBetaPriorVar html estimateDispersions html estimateDispersionsGeneEst html estimateSizeFactors html estimateSizeFactorsForMatrix html fpkm html fpm html integrateWithSingleCell html lfcShrink html makeExampleDESeqDataSet html nbinomLRT html nbinomWaldTest html normTransform html normalizationFactors html normalizeGeneLength html plotCounts html plotDispEsts html plotMA html plotPCA html plotSparsity html priorInfo html replaceOutliers html results html rlog html show html sizeFactors html summary html unmix html varianceStabilizingTransformation html vst html ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * MD5 sums packaged installation of 'DESeq2' as DESeq2_1.35.0.zip * DONE (DESeq2)