############################################################################## ############################################################################## ### ### Running command: ### ### C:\cygwin\bin\curl.exe -O http://155.52.207.166/BBS/3.14/bioc/src/contrib/Ringo_1.58.0.tar.gz && rm -rf Ringo.buildbin-libdir && mkdir Ringo.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=Ringo.buildbin-libdir Ringo_1.58.0.tar.gz && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL Ringo_1.58.0.zip && rm Ringo_1.58.0.tar.gz Ringo_1.58.0.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 77 570k 77 442k 0 0 738k 0 --:--:-- --:--:-- --:--:-- 737k 100 570k 100 570k 0 0 801k 0 --:--:-- --:--:-- --:--:-- 801k install for i386 * installing *source* package 'Ringo' ... ** using staged installation ** libs "C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c mmeansd.cpp -o mmeansd.o mmeansd.cpp: In function 'SEXPREC* moving_mean_sd(SEXP, SEXP, SEXP)': mmeansd.cpp:29:24: warning: variable 'is' set but not used [-Wunused-but-set-variable] int * x, nval, hs, is, i; ^~ "C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c mmedian.cpp -o mmedian.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 region_overlap.c -o region_overlap.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 ringo_init.c -o ringo_init.o C:/rtools40/mingw32/bin/g++ -std=gnu++11 -shared -s -static-libgcc -o Ringo.dll tmp.def mmeansd.o mmedian.o region_overlap.o ringo_init.o -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.14-/R/bin/i386 -lR installing to C:/Users/biocbuild/bbs-3.14-bioc/meat/Ringo.buildbin-libdir/00LOCK-Ringo/00new/Ringo/libs/i386 ** R ** inst ** byte-compile and prepare package for lazy loading Creating a generic function for 'ls' from package 'base' in package 'Ringo' ** help *** installing help indices converting help for package 'Ringo' finding HTML links ... done Ringo-internal html arrayImage html asExprSet html autocorr html cherByThreshold html cherClass html REDIRECT:topic Previous alias or file overwritten by alias: C:/Users/biocbuild/bbs-3.14-bioc/meat/Ringo.buildbin-libdir/00LOCK-Ringo/00new/Ringo/help/Cher.html chipAlongChrom html chipAlongChromOld html computeRunningMedians html compute_gc html compute_sliding_t html corrPlot html exportCherList html extractProbeAnno html features2Probes html findChersOnSmoothed html ftr2xys html getFeats html newCER html nimblegenNorm html nonzero html plotAutocorr html plotBM html plot_cher html posToProbeAnnoEnvironment html preprocess html probeAnnoClass html qopS4 html quantilesOverPositions html readNimblegen html regionoverlap html relateCERs html sigGOTable html sliding_meansd html sliding_quantile html twoGaussiansNull html upperBoundNull html validProbeAnno 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 'Ringo' ... ** libs "C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c mmeansd.cpp -o mmeansd.o mmeansd.cpp: In function 'SEXPREC* moving_mean_sd(SEXP, SEXP, SEXP)': mmeansd.cpp:29:24: warning: variable 'is' set but not used [-Wunused-but-set-variable] int * x, nval, hs, is, i; ^~ "C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c mmedian.cpp -o mmedian.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 region_overlap.c -o region_overlap.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 ringo_init.c -o ringo_init.o C:/rtools40/mingw64/bin/g++ -std=gnu++11 -shared -s -static-libgcc -o Ringo.dll tmp.def mmeansd.o mmedian.o region_overlap.o ringo_init.o -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.14-/R/bin/x64 -lR installing to C:/Users/biocbuild/bbs-3.14-bioc/meat/Ringo.buildbin-libdir/Ringo/libs/x64 ** testing if installed package can be loaded * MD5 sums packaged installation of 'Ringo' as Ringo_1.58.0.zip * DONE (Ringo) * installing to library 'C:/Users/biocbuild/bbs-3.14-bioc/R/library' package 'Ringo' successfully unpacked and MD5 sums checked