############################################################################## ############################################################################## ### ### Running command: ### ### rm -rf kebabs.buildbin-libdir && mkdir kebabs.buildbin-libdir && F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD INSTALL --build --library=kebabs.buildbin-libdir kebabs_1.39.0.tar.gz ### ############################################################################## ############################################################################## * installing *source* package 'kebabs' ... ** using staged installation ** libs using C compiler: 'gcc.exe (GCC) 13.2.0' using C++ compiler: 'G__~1.EXE (GCC) 13.2.0' gcc -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG -DSTRICT_R_HEADERS -I'F:/biocbuild/bbs-3.20-bioc/R/library/IRanges/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/XVector/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/Biostrings/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/S4Vectors/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c Biostrings_stubs.c -o Biostrings_stubs.o gcc -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG -DSTRICT_R_HEADERS -I'F:/biocbuild/bbs-3.20-bioc/R/library/IRanges/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/XVector/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/Biostrings/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/S4Vectors/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c ByteStringVector.c -o ByteStringVector.o g++ -std=gnu++17 -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG -DSTRICT_R_HEADERS -I'F:/biocbuild/bbs-3.20-bioc/R/library/IRanges/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/XVector/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/Biostrings/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/S4Vectors/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c ExplicitRepC.cpp -o ExplicitRepC.o g++ -std=gnu++17 -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG -DSTRICT_R_HEADERS -I'F:/biocbuild/bbs-3.20-bioc/R/library/IRanges/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/XVector/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/Biostrings/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/S4Vectors/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c FeatureWeightsPosDepC.cpp -o FeatureWeightsPosDepC.o g++ -std=gnu++17 -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG -DSTRICT_R_HEADERS -I'F:/biocbuild/bbs-3.20-bioc/R/library/IRanges/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/XVector/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/Biostrings/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/S4Vectors/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c GappyPairC.cpp -o GappyPairC.o GappyPairC.cpp: In function 'SEXPREC* gappyPairKernelMatrixC(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)': GappyPairC.cpp:3480:33: warning: 'y.ByteStringVector::nchar' may be used uninitialized [-Wmaybe-uninitialized] 3480 | getKMStdAnnGappy(maxUIndex8, km, x, y, sizeX, sizeY, selX, selY, annCharset, annX, annY, | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 3481 | k, m, normalized, symmetric, presence, reverseComplement, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 3482 | maxSeqLength, dimFeatureSpace, &alphaInf); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ GappyPairC.cpp:3409:25: note: 'y.ByteStringVector::nchar' was declared here 3409 | ByteStringVector x, y, annX, annY, annCharset; | ^ GappyPairC.cpp:3480:33: warning: 'y.ByteStringVector::ptr' may be used uninitialized [-Wmaybe-uninitialized] 3480 | getKMStdAnnGappy(maxUIndex8, km, x, y, sizeX, sizeY, selX, selY, annCharset, annX, annY, | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 3481 | k, m, normalized, symmetric, presence, reverseComplement, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 3482 | maxSeqLength, dimFeatureSpace, &alphaInf); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ GappyPairC.cpp:3409:25: note: 'y.ByteStringVector::ptr' was declared here 3409 | ByteStringVector x, y, annX, annY, annCharset; | ^ GappyPairC.cpp:3480:33: warning: 'annY.ByteStringVector::ptr' may be used uninitialized [-Wmaybe-uninitialized] 3480 | getKMStdAnnGappy(maxUIndex8, km, x, y, sizeX, sizeY, selX, selY, annCharset, annX, annY, | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 3481 | k, m, normalized, symmetric, presence, reverseComplement, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 3482 | maxSeqLength, dimFeatureSpace, &alphaInf); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ GappyPairC.cpp:3409:34: note: 'annY.ByteStringVector::ptr' was declared here 3409 | ByteStringVector x, y, annX, annY, annCharset; | ^~~~ GappyPairC.cpp:3480:33: warning: 'annX.ByteStringVector::ptr' may be used uninitialized [-Wmaybe-uninitialized] 3480 | getKMStdAnnGappy(maxUIndex8, km, x, y, sizeX, sizeY, selX, selY, annCharset, annX, annY, | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 3481 | k, m, normalized, symmetric, presence, reverseComplement, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 3482 | maxSeqLength, dimFeatureSpace, &alphaInf); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ GappyPairC.cpp:3409:28: note: 'annX.ByteStringVector::ptr' was declared here 3409 | ByteStringVector x, y, annX, annY, annCharset; | ^~~~ gcc -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG -DSTRICT_R_HEADERS -I'F:/biocbuild/bbs-3.20-bioc/R/library/IRanges/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/XVector/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/Biostrings/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/S4Vectors/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c IRanges_stubs.c -o IRanges_stubs.o g++ -std=gnu++17 -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG -DSTRICT_R_HEADERS -I'F:/biocbuild/bbs-3.20-bioc/R/library/IRanges/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/XVector/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/Biostrings/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/S4Vectors/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c KernelUtils.cpp -o KernelUtils.o g++ -std=gnu++17 -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG -DSTRICT_R_HEADERS -I'F:/biocbuild/bbs-3.20-bioc/R/library/IRanges/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/XVector/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/Biostrings/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/S4Vectors/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c MismatchC.cpp -o MismatchC.o MismatchC.cpp: In function 'SEXPREC* getMismatchKernelMatrix(Rcpp::NumericMatrix, ByteStringVector, ByteStringVector, int, int, Rcpp::IntegerVector, Rcpp::IntegerVector, bool, int, bool, bool, int, int, bool, bool, int, alphaInfo*)': MismatchC.cpp:432:41: warning: 'currValSqrt' may be used uninitialized [-Wmaybe-uninitialized] 432 | km(i,j) = kernelVal / currValSqrt; | ~~~~~~~~~~^~~~~~~~~~~~~ MismatchC.cpp:368:32: note: 'currValSqrt' was declared here 368 | double kernelVal, currVal, currValSqrt; | ^~~~~~~~~~~ g++ -std=gnu++17 -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG -DSTRICT_R_HEADERS -I'F:/biocbuild/bbs-3.20-bioc/R/library/IRanges/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/XVector/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/Biostrings/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/S4Vectors/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c MotifC.cpp -o MotifC.o MotifC.cpp: In function 'void genPredProfileMotif(Rcpp::NumericMatrix, ByteStringVector, Rcpp::IntegerVector, int, ByteStringVector, ByteStringVector, int, bool, int, int, int, int, Rcpp::NumericMatrix, int, ByteStringVector, Rcpp::IntegerVector*, int, int, ByteStringVector, Rcpp::IntegerVector*, int, int, int, bool, bool, bool)': MotifC.cpp:3677:18: warning: 'keyPool' may be used uninitialized [-Wmaybe-uninitialized] 3677 | pKeypool = keyPool; | ~~~~~~~~~^~~~~~~~~ MotifC.cpp:3514:11: note: 'keyPool' was declared here 3514 | char *keyPool; | ^~~~~~~ g++ -std=gnu++17 -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG -DSTRICT_R_HEADERS -I'F:/biocbuild/bbs-3.20-bioc/R/library/IRanges/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/XVector/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/Biostrings/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/S4Vectors/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c PredictionC.cpp -o PredictionC.o g++ -std=gnu++17 -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG -DSTRICT_R_HEADERS -I'F:/biocbuild/bbs-3.20-bioc/R/library/IRanges/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/XVector/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/Biostrings/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/S4Vectors/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c PredictionProfileC.cpp -o PredictionProfileC.o g++ -std=gnu++17 -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG -DSTRICT_R_HEADERS -I'F:/biocbuild/bbs-3.20-bioc/R/library/IRanges/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/XVector/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/Biostrings/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/S4Vectors/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c R_init_kebabs.cpp -o R_init_kebabs.o gcc -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG -DSTRICT_R_HEADERS -I'F:/biocbuild/bbs-3.20-bioc/R/library/IRanges/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/XVector/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/Biostrings/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/S4Vectors/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c Rsvm.c -o Rsvm.o g++ -std=gnu++17 -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG -DSTRICT_R_HEADERS -I'F:/biocbuild/bbs-3.20-bioc/R/library/IRanges/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/XVector/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/Biostrings/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/S4Vectors/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c SparseMatrixHash.cpp -o SparseMatrixHash.o g++ -std=gnu++17 -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG -DSTRICT_R_HEADERS -I'F:/biocbuild/bbs-3.20-bioc/R/library/IRanges/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/XVector/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/Biostrings/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/S4Vectors/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c SpectrumC.cpp -o SpectrumC.o In function 'void getKMStdAnnSpec(T, Rcpp::NumericMatrix, ByteStringVector, ByteStringVector, int, int, Rcpp::IntegerVector, Rcpp::IntegerVector, ByteStringVector, ByteStringVector, ByteStringVector, int, bool, bool, bool, bool, int, uint64_t, alphaInfo*) [with T = unsigned char]', inlined from 'SEXPREC* spectrumKernelMatrixC(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)' at SpectrumC.cpp:3228:32: SpectrumC.cpp:832:38: warning: 'y.ByteStringVector::nchar' may be used uninitialized [-Wmaybe-uninitialized] 832 | seqnchar = y.nchar[iY]; | ~~~~~~~~~~^ SpectrumC.cpp: In function 'SEXPREC* spectrumKernelMatrixC(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)': SpectrumC.cpp:3158:25: note: 'y.ByteStringVector::nchar' was declared here 3158 | ByteStringVector x, y, annX, annY, annCharset; | ^ In function 'void getKMStdAnnSpec(T, Rcpp::NumericMatrix, ByteStringVector, ByteStringVector, int, int, Rcpp::IntegerVector, Rcpp::IntegerVector, ByteStringVector, ByteStringVector, ByteStringVector, int, bool, bool, bool, bool, int, uint64_t, alphaInfo*) [with T = unsigned char]', inlined from 'SEXPREC* spectrumKernelMatrixC(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)' at SpectrumC.cpp:3228:32: SpectrumC.cpp:831:34: warning: 'y.ByteStringVector::ptr' may be used uninitialized [-Wmaybe-uninitialized] 831 | seqptr = y.ptr[iY]; | ~~~~~~~~^ SpectrumC.cpp: In function 'SEXPREC* spectrumKernelMatrixC(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)': SpectrumC.cpp:3158:25: note: 'y.ByteStringVector::ptr' was declared here 3158 | ByteStringVector x, y, annX, annY, annCharset; | ^ SpectrumC.cpp:3246:32: warning: 'annY.ByteStringVector::ptr' may be used uninitialized [-Wmaybe-uninitialized] 3246 | getKMStdAnnSpec(maxUIndex16, km, x, y, sizeX, sizeY, selX, selY, annCharset, annX, annY, | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 3247 | k, normalized, symmetric, presence, reverseComplement, maxSeqLength, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 3248 | dimFeatureSpace, &alphaInf); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ SpectrumC.cpp:3158:34: note: 'annY.ByteStringVector::ptr' was declared here 3158 | ByteStringVector x, y, annX, annY, annCharset; | ^~~~ SpectrumC.cpp:3246:32: warning: 'annX.ByteStringVector::ptr' may be used uninitialized [-Wmaybe-uninitialized] 3246 | getKMStdAnnSpec(maxUIndex16, km, x, y, sizeX, sizeY, selX, selY, annCharset, annX, annY, | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 3247 | k, normalized, symmetric, presence, reverseComplement, maxSeqLength, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 3248 | dimFeatureSpace, &alphaInf); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~ SpectrumC.cpp:3158:28: note: 'annX.ByteStringVector::ptr' was declared here 3158 | ByteStringVector x, y, annX, annY, annCharset; | ^~~~ g++ -std=gnu++17 -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG -DSTRICT_R_HEADERS -I'F:/biocbuild/bbs-3.20-bioc/R/library/IRanges/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/XVector/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/Biostrings/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/S4Vectors/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c SymmetricPairC.cpp -o SymmetricPairC.o g++ -std=gnu++17 -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG -DSTRICT_R_HEADERS -I'F:/biocbuild/bbs-3.20-bioc/R/library/IRanges/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/XVector/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/Biostrings/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/S4Vectors/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c Utils.cpp -o Utils.o gcc -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG -DSTRICT_R_HEADERS -I'F:/biocbuild/bbs-3.20-bioc/R/library/IRanges/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/XVector/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/Biostrings/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/S4Vectors/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c XVector_stubs.c -o XVector_stubs.o g++ -std=gnu++17 -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG -DSTRICT_R_HEADERS -I'F:/biocbuild/bbs-3.20-bioc/R/library/IRanges/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/XVector/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/Biostrings/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/S4Vectors/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c svm.cpp -o svm.o g++ -std=gnu++17 -shared -s -static-libgcc -o kebabs.dll tmp.def Biostrings_stubs.o ByteStringVector.o ExplicitRepC.o FeatureWeightsPosDepC.o GappyPairC.o IRanges_stubs.o KernelUtils.o MismatchC.o MotifC.o PredictionC.o PredictionProfileC.o R_init_kebabs.o Rsvm.o SparseMatrixHash.o SpectrumC.o SymmetricPairC.o Utils.o XVector_stubs.o svm.o -LC:/rtools44/x86_64-w64-mingw32.static.posix/lib/x64 -LC:/rtools44/x86_64-w64-mingw32.static.posix/lib -LF:/biocbuild/bbs-3.20-bioc/R/bin/x64 -lR installing to F:/biocbuild/bbs-3.20-bioc/meat/kebabs.buildbin-libdir/00LOCK-kebabs/00new/kebabs/libs/x64 ** R ** data ** 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 'kebabs' as kebabs_1.39.0.zip * DONE (kebabs)