############################################################################## ############################################################################## ### ### Running command: ### ### C:\cygwin\bin\curl.exe -O http://155.52.207.166/BBS/3.14/bioc/src/contrib/ADaCGH2_2.34.0.tar.gz && rm -rf ADaCGH2.buildbin-libdir && mkdir ADaCGH2.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=ADaCGH2.buildbin-libdir ADaCGH2_2.34.0.tar.gz && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL ADaCGH2_2.34.0.zip && rm ADaCGH2_2.34.0.tar.gz ADaCGH2_2.34.0.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 91 721k 91 663k 0 0 1043k 0 --:--:-- --:--:-- --:--:-- 1044k 100 721k 100 721k 0 0 755k 0 --:--:-- --:--:-- --:--:-- 755k install for i386 * installing *source* package 'ADaCGH2' ... ** using staged installation ** libs "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 init.c -o init.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 r_haarseg.c -o r_haarseg.o r_haarseg.c: In function 'ad_HaarConv': r_haarseg.c:65:12: warning: unused variable 'totalNorm' [-Wunused-variable] double totalNorm; ^~~~~~~~~ r_haarseg.c: In function 'ad_FindLocalPeaks': r_haarseg.c:152:8: warning: "/*" within comment [-Wcomment] }/* for j */ r_haarseg.c:176:8: warning: "/*" within comment [-Wcomment] }/* for j */ r_haarseg.c:128:9: warning: unused variable 'j' [-Wunused-variable] int k,j; ^ r_haarseg.c: In function 'ad_HaarConv': r_haarseg.c:97:27: warning: 'highNonNormed' may be used uninitialized in this function [-Wmaybe-uninitialized] highNonNormed += signal[highEnd]*weight[highEnd] - signal[k-1]*weight[k-1]; ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ r_haarseg.c:96:26: warning: 'lowNonNormed' may be used uninitialized in this function [-Wmaybe-uninitialized] lowNonNormed += signal[lowEnd]*weight[lowEnd] - signal[k-1]*weight[k-1]; ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ r_haarseg.c:99:27: warning: 'highWeightSum' may be used uninitialized in this function [-Wmaybe-uninitialized] highWeightSum += weight[highEnd] - weight[k-1]; ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ r_haarseg.c:98:26: warning: 'lowWeightSum' may be used uninitialized in this function [-Wmaybe-uninitialized] lowWeightSum += weight[k-1] - weight[lowEnd]; ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ C:/rtools40/mingw32/bin/gcc -shared -s -static-libgcc -o ADaCGH2.dll tmp.def init.o r_haarseg.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/ADaCGH2.buildbin-libdir/00LOCK-ADaCGH2/00new/ADaCGH2/libs/i386 ** R ** data ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices converting help for package 'ADaCGH2' finding HTML links ... done cutFile html inputEx html inputToADaCGH html finding level-2 HTML links ... done outputToCGHregions html pChromPlot html pSegment html ** building package indices ** installing vignettes 'ADaCGH2.Rnw' using 'latin1' ** 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 'ADaCGH2' ... ** libs "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 init.c -o init.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 r_haarseg.c -o r_haarseg.o r_haarseg.c: In function 'ad_HaarConv': r_haarseg.c:65:12: warning: unused variable 'totalNorm' [-Wunused-variable] double totalNorm; ^~~~~~~~~ r_haarseg.c: In function 'ad_FindLocalPeaks': r_haarseg.c:152:8: warning: "/*" within comment [-Wcomment] }/* for j */ r_haarseg.c:176:8: warning: "/*" within comment [-Wcomment] }/* for j */ r_haarseg.c:128:9: warning: unused variable 'j' [-Wunused-variable] int k,j; ^ r_haarseg.c: In function 'ad_HaarConv': r_haarseg.c:97:27: warning: 'highNonNormed' may be used uninitialized in this function [-Wmaybe-uninitialized] highNonNormed += signal[highEnd]*weight[highEnd] - signal[k-1]*weight[k-1]; ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ r_haarseg.c:96:26: warning: 'lowNonNormed' may be used uninitialized in this function [-Wmaybe-uninitialized] lowNonNormed += signal[lowEnd]*weight[lowEnd] - signal[k-1]*weight[k-1]; ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ r_haarseg.c:99:27: warning: 'highWeightSum' may be used uninitialized in this function [-Wmaybe-uninitialized] highWeightSum += weight[highEnd] - weight[k-1]; ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ r_haarseg.c:98:26: warning: 'lowWeightSum' may be used uninitialized in this function [-Wmaybe-uninitialized] lowWeightSum += weight[k-1] - weight[lowEnd]; ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ C:/rtools40/mingw64/bin/gcc -shared -s -static-libgcc -o ADaCGH2.dll tmp.def init.o r_haarseg.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/ADaCGH2.buildbin-libdir/ADaCGH2/libs/x64 ** testing if installed package can be loaded * MD5 sums packaged installation of 'ADaCGH2' as ADaCGH2_2.34.0.zip * DONE (ADaCGH2) * installing to library 'C:/Users/biocbuild/bbs-3.14-bioc/R/library' package 'ADaCGH2' successfully unpacked and MD5 sums checked