############################################################################## ############################################################################## ### ### Running command: ### ### C:\cygwin\bin\curl.exe -O http://155.52.207.166/BBS/3.14/bioc/src/contrib/DNAcopy_1.68.0.tar.gz && rm -rf DNAcopy.buildbin-libdir && mkdir DNAcopy.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=DNAcopy.buildbin-libdir DNAcopy_1.68.0.tar.gz && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL DNAcopy_1.68.0.zip && rm DNAcopy_1.68.0.tar.gz DNAcopy_1.68.0.zip ### ############################################################################## ############################################################################## % Total % Received % Xferd Average Speed Time Time Time Current Dload Upload Total Spent Left Speed 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 100 115k 100 115k 0 0 413k 0 --:--:-- --:--:-- --:--:-- 415k install for i386 * installing *source* package 'DNAcopy' ... ** using staged installation ** libs "C:/rtools40/mingw32/bin/"gfortran -fno-optimize-sibling-calls -O2 -mfpmath=sse -msse2 -mstackrealign -c cbsWtstats.f -o cbsWtstats.o "C:/rtools40/mingw32/bin/"gfortran -fno-optimize-sibling-calls -O2 -mfpmath=sse -msse2 -mstackrealign -c cbststats.f -o cbststats.o "C:/rtools40/mingw32/bin/"gfortran -fno-optimize-sibling-calls -O2 -mfpmath=sse -msse2 -mstackrealign -c changepoints-wtd.f -o changepoints-wtd.o "C:/rtools40/mingw32/bin/"gfortran -fno-optimize-sibling-calls -O2 -mfpmath=sse -msse2 -mstackrealign -c changepoints.f -o changepoints.o "C:/rtools40/mingw32/bin/"gfortran -fno-optimize-sibling-calls -O2 -mfpmath=sse -msse2 -mstackrealign -c esegment.f -o esegment.o "C:/rtools40/mingw32/bin/"gcc -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c flchoose.c -o flchoose.o "C:/rtools40/mingw32/bin/"gcc -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c fphyper.c -o fphyper.o "C:/rtools40/mingw32/bin/"gcc -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c fpnorm.c -o fpnorm.o "C:/rtools40/mingw32/bin/"gfortran -fno-optimize-sibling-calls -O2 -mfpmath=sse -msse2 -mstackrealign -c getbdry.f -o getbdry.o "C:/rtools40/mingw32/bin/"gfortran -fno-optimize-sibling-calls -O2 -mfpmath=sse -msse2 -mstackrealign -c prune.f -o prune.o "C:/rtools40/mingw32/bin/"gcc -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c rshared.c -o rshared.o "C:/rtools40/mingw32/bin/"gfortran -fno-optimize-sibling-calls -O2 -mfpmath=sse -msse2 -mstackrealign -c segmentp.f -o segmentp.o "C:/rtools40/mingw32/bin/"gfortran -fno-optimize-sibling-calls -O2 -mfpmath=sse -msse2 -mstackrealign -c smoothCNA.f -o smoothCNA.o "C:/rtools40/mingw32/bin/"gfortran -fno-optimize-sibling-calls -O2 -mfpmath=sse -msse2 -mstackrealign -c tailprobs.f -o tailprobs.o C:/rtools40/mingw32/bin/gcc -shared -s -static-libgcc -o DNAcopy.dll tmp.def cbsWtstats.o cbststats.o changepoints-wtd.o changepoints.o esegment.o flchoose.o fphyper.o fpnorm.o getbdry.o prune.o rshared.o segmentp.o smoothCNA.o tailprobs.o -LC:/extsoft/lib/i386 -LC:/extsoft/lib -lgfortran -lm -lquadmath -LC:/Users/BIOCBU~1/BBS-3~1.14-/R/bin/i386 -lR installing to C:/Users/biocbuild/bbs-3.14-bioc/meat/DNAcopy.buildbin-libdir/00LOCK-DNAcopy/00new/DNAcopy/libs/i386 ** R ** data *** moving datasets to lazyload DB ** demo ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices converting help for package 'DNAcopy' finding HTML links ... done CNA html DNAcopy-internal html DNAcopy html coriell html cytoBand html exon.segment html getbdry html glFrequency html plot.DNAcopy html plotSample html segment html segments.p html segments.summary html smooth.CNA html subset.CNA html subset.DNAcopy html zoomIntoRegion 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 install for x64 * installing *source* package 'DNAcopy' ... ** libs "C:/rtools40/mingw64/bin/"gfortran -fno-optimize-sibling-calls -O2 -mfpmath=sse -msse2 -mstackrealign -c cbsWtstats.f -o cbsWtstats.o "C:/rtools40/mingw64/bin/"gfortran -fno-optimize-sibling-calls -O2 -mfpmath=sse -msse2 -mstackrealign -c cbststats.f -o cbststats.o "C:/rtools40/mingw64/bin/"gfortran -fno-optimize-sibling-calls -O2 -mfpmath=sse -msse2 -mstackrealign -c changepoints-wtd.f -o changepoints-wtd.o "C:/rtools40/mingw64/bin/"gfortran -fno-optimize-sibling-calls -O2 -mfpmath=sse -msse2 -mstackrealign -c changepoints.f -o changepoints.o "C:/rtools40/mingw64/bin/"gfortran -fno-optimize-sibling-calls -O2 -mfpmath=sse -msse2 -mstackrealign -c esegment.f -o esegment.o "C:/rtools40/mingw64/bin/"gcc -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c flchoose.c -o flchoose.o "C:/rtools40/mingw64/bin/"gcc -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c fphyper.c -o fphyper.o "C:/rtools40/mingw64/bin/"gcc -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c fpnorm.c -o fpnorm.o "C:/rtools40/mingw64/bin/"gfortran -fno-optimize-sibling-calls -O2 -mfpmath=sse -msse2 -mstackrealign -c getbdry.f -o getbdry.o "C:/rtools40/mingw64/bin/"gfortran -fno-optimize-sibling-calls -O2 -mfpmath=sse -msse2 -mstackrealign -c prune.f -o prune.o "C:/rtools40/mingw64/bin/"gcc -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c rshared.c -o rshared.o "C:/rtools40/mingw64/bin/"gfortran -fno-optimize-sibling-calls -O2 -mfpmath=sse -msse2 -mstackrealign -c segmentp.f -o segmentp.o "C:/rtools40/mingw64/bin/"gfortran -fno-optimize-sibling-calls -O2 -mfpmath=sse -msse2 -mstackrealign -c smoothCNA.f -o smoothCNA.o "C:/rtools40/mingw64/bin/"gfortran -fno-optimize-sibling-calls -O2 -mfpmath=sse -msse2 -mstackrealign -c tailprobs.f -o tailprobs.o C:/rtools40/mingw64/bin/gcc -shared -s -static-libgcc -o DNAcopy.dll tmp.def cbsWtstats.o cbststats.o changepoints-wtd.o changepoints.o esegment.o flchoose.o fphyper.o fpnorm.o getbdry.o prune.o rshared.o segmentp.o smoothCNA.o tailprobs.o -LC:/extsoft/lib/x64 -LC:/extsoft/lib -lgfortran -lm -lquadmath -LC:/Users/BIOCBU~1/BBS-3~1.14-/R/bin/x64 -lR installing to C:/Users/biocbuild/bbs-3.14-bioc/meat/DNAcopy.buildbin-libdir/DNAcopy/libs/x64 ** testing if installed package can be loaded * MD5 sums packaged installation of 'DNAcopy' as DNAcopy_1.68.0.zip * DONE (DNAcopy) * installing to library 'C:/Users/biocbuild/bbs-3.14-bioc/R/library' package 'DNAcopy' successfully unpacked and MD5 sums checked