############################################################################## ############################################################################## ### ### Running command: ### ### C:\cygwin\bin\curl.exe -O http://155.52.207.166/BBS/3.14/bioc/src/contrib/PING_2.38.0.tar.gz && rm -rf PING.buildbin-libdir && mkdir PING.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=PING.buildbin-libdir PING_2.38.0.tar.gz && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL PING_2.38.0.zip && rm PING_2.38.0.tar.gz PING_2.38.0.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 3 4626k 3 165k 0 0 719k 0 0:00:06 --:--:-- 0:00:06 718k 79 4626k 79 3683k 0 0 2965k 0 0:00:01 0:00:01 --:--:-- 2965k 100 4626k 100 4626k 0 0 3161k 0 0:00:01 0:00:01 --:--:-- 3162k install for i386 * installing *source* package 'PING' ... ** using staged installation ********************************************** WARNING: this package has a configure script It probably needs manual configuration ********************************************** ** libs "C:/rtools40/mingw32/bin/"gcc -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -Ifusion_sdk -D_USE_MEM_MAPPING_ -I/src/include -I/i386/include -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 -Ifusion_sdk -D_USE_MEM_MAPPING_ -I/src/include -I/i386/include -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c ping.c -o ping.o ping.c: In function 'fitModelAllk': ping.c:145:40: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses] if( REAL(VECTOR_ELT(paraPrior, 5))[0]>0 & REAL(VECTOR_ELT(paraEM, 0))[0]==0) // automatically decide minK and maxKK for histone data, when minK=0 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ ping.c: In function 'ECM2': ping.c:1536:9: warning: variable 'chiSum' set but not used [-Wunused-but-set-variable] double chiSum = 0, etaF, etaR, dd, cc; ^~~~~~ ping.c: In function 'mergePeak': ping.c:3280:20: warning: variable 'tstatMax' set but not used [-Wunused-but-set-variable] double tstat=0.0,tstatMax=0.0; ^~~~~~~~ ping.c: In function 'fitModelK': ping.c:477:18: warning: 'firstFit' may be used uninitialized in this function [-Wmaybe-uninitialized] SEXP ans, temp, firstFit; ^~~~~~~~ C:/rtools40/mingw32/bin/gcc -shared -s -static-libgcc -o PING.dll tmp.def init.o ping.o -lws2_32 -L/i386/lib -lgsl -lgslcblas -lm -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/PING.buildbin-libdir/00LOCK-PING/00new/PING/libs/i386 ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices converting help for package 'PING' finding HTML links ... done postPING 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 'PING' ... ********************************************** WARNING: this package has a configure script It probably needs manual configuration ********************************************** ** libs "C:/rtools40/mingw64/bin/"gcc -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -Ifusion_sdk -D_USE_MEM_MAPPING_ -I/src/include -I/x64/include -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 -Ifusion_sdk -D_USE_MEM_MAPPING_ -I/src/include -I/x64/include -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c ping.c -o ping.o ping.c: In function 'fitModelAllk': ping.c:145:40: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses] if( REAL(VECTOR_ELT(paraPrior, 5))[0]>0 & REAL(VECTOR_ELT(paraEM, 0))[0]==0) // automatically decide minK and maxKK for histone data, when minK=0 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ ping.c: In function 'ECM2': ping.c:1536:9: warning: variable 'chiSum' set but not used [-Wunused-but-set-variable] double chiSum = 0, etaF, etaR, dd, cc; ^~~~~~ ping.c: In function 'mergePeak': ping.c:3280:20: warning: variable 'tstatMax' set but not used [-Wunused-but-set-variable] double tstat=0.0,tstatMax=0.0; ^~~~~~~~ ping.c: In function 'fitModelK': ping.c:477:18: warning: 'firstFit' may be used uninitialized in this function [-Wmaybe-uninitialized] SEXP ans, temp, firstFit; ^~~~~~~~ C:/rtools40/mingw64/bin/gcc -shared -s -static-libgcc -o PING.dll tmp.def init.o ping.o -lws2_32 -L/x64/lib -lgsl -lgslcblas -lm -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/PING.buildbin-libdir/PING/libs/x64 ** testing if installed package can be loaded * MD5 sums packaged installation of 'PING' as PING_2.38.0.zip * DONE (PING) * installing to library 'C:/Users/biocbuild/bbs-3.14-bioc/R/library' package 'PING' successfully unpacked and MD5 sums checked