############################################################################## ############################################################################## ### ### Running command: ### ### rm -rf PICS.buildbin-libdir && mkdir PICS.buildbin-libdir && E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD INSTALL --build --library=PICS.buildbin-libdir PICS_2.51.0.tar.gz ### ############################################################################## ############################################################################## * installing *source* package 'PICS' ... ** using staged installation ********************************************** WARNING: this package has a configure script It probably needs manual configuration ********************************************** ** libs using C compiler: 'gcc.exe (GCC) 13.3.0' gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -Ifusion_sdk -D_USE_MEM_MAPPING_ -I/x64/include -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c pics.c -o pics.o pics.c: In function 'ECM2': pics.c:1009:16: warning: variable 'chiSum' set but not used [-Wunused-but-set-variable] 1009 | double chiSum, etaF, etaR, dd, cc; | ^~~~~~ pics.c: In function 'getInfMat': pics.c:1633:83: warning: unused variable 'PhiRw' [-Wunused-variable] 1633 | double aNormF, aNormR, bNormF, bNormR, P0F=1, P0R=1, PhiF, PhiR, PhiFw, PhiRw, wPjF, wPjR; | ^~~~~ pics.c:1633:76: warning: unused variable 'PhiFw' [-Wunused-variable] 1633 | double aNormF, aNormR, bNormF, bNormR, P0F=1, P0R=1, PhiF, PhiR, PhiFw, PhiRw, wPjF, wPjR; | ^~~~~ pics.c: In function 'mergePeak': pics.c:1889:11: warning: unused variable 'j' [-Wunused-variable] 1889 | int i=0,j=0,k=0,l=0,kMerge=0,flag=0; | ^ pics.c:1889:7: warning: unused variable 'i' [-Wunused-variable] 1889 | int i=0,j=0,k=0,l=0,kMerge=0,flag=0; | ^ pics.c: In function 'BIC': pics.c:1307:13: warning: 'penalty' may be used uninitialized [-Wmaybe-uninitialized] 1307 | bic = logDensityMix(yF, w, muF, sigmaSqF, K, NF) + logDensityMix(yR, w, muR, sigmaSqR, K,NR) - penalty; | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ pics.c:1275:42: note: 'penalty' was declared here 1275 | double bic, tmp, muF[K], muR[K], penalty, distance; | ^~~~~~~ pics.c: In function 'fitModelK': pics.c:494:23: warning: 'firstFit' may be used uninitialized [-Wmaybe-uninitialized] 494 | return(ans); | ^ pics.c:421:25: note: 'firstFit' was declared here 421 | SEXP ans, temp, firstFit; | ^~~~~~~~ gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -Ifusion_sdk -D_USE_MEM_MAPPING_ -I/x64/include -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c segment.c -o segment.o segment.c: In function 'getDensity': segment.c:1494:19: warning: variable 'chr' set but not used [-Wunused-but-set-variable] 1494 | SEXP ans, x, y, chr, names; | ^~~ segment.c:1490:8: warning: unused variable 'filter1' [-Wunused-variable] 1490 | SEXP filter1; | ^~~~~~~ segment.c:1489:11: warning: unused variable 'muFilter' [-Wunused-variable] 1489 | double *muFilter, *deltaFilter, *sFFilter, *sRFilter, *seFilter, *seFilterF, *seFilterR, *scoreFilter, *score; | ^~~~~~~~ gcc -shared -s -static-libgcc -o PICS.dll tmp.def pics.o segment.o -lws2_32 -L/x64/lib -lgsl -lgslcblas -lm -LC:/rtools44/x86_64-w64-mingw32.static.posix/lib/x64 -LC:/rtools44/x86_64-w64-mingw32.static.posix/lib -LE:/biocbuild/bbs-3.21-bioc/R/bin/x64 -lR installing to E:/biocbuild/bbs-3.21-bioc/meat/PICS.buildbin-libdir/00LOCK-PICS/00new/PICS/libs/x64 ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** 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 'PICS' as PICS_2.51.0.zip * DONE (PICS)