############################################################################## ############################################################################## ### ### Running command: ### ### chmod a+r GLAD -R && E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data GLAD ### ############################################################################## ############################################################################## * checking for file 'GLAD/DESCRIPTION' ... OK * preparing 'GLAD': * checking DESCRIPTION meta-information ... OK * cleaning src * installing the package to build vignettes ----------------------------------- * installing *source* package 'GLAD' ... ** this is package 'GLAD' version '2.71.0' ** 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' using C++ compiler: 'G__~1.EXE (GCC) 13.3.0' g++ -std=gnu++17 -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I/src/include -I/x64/include -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -DR_NO_REMAP -c BkpInfo.cpp -o BkpInfo.o g++ -std=gnu++17 -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I/src/include -I/x64/include -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -DR_NO_REMAP -c HaarSeg.cpp -o HaarSeg.o g++ -std=gnu++17 -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I/src/include -I/x64/include -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -DR_NO_REMAP -c MoveBkp.cpp -o MoveBkp.o g++ -std=gnu++17 -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I/src/include -I/x64/include -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -DR_NO_REMAP -c OutliersGNL.cpp -o OutliersGNL.o g++ -std=gnu++17 -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I/src/include -I/x64/include -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -DR_NO_REMAP -c chrBreakpoints.cpp -o chrBreakpoints.o g++ -std=gnu++17 -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I/src/include -I/x64/include -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -DR_NO_REMAP -c cutree.cpp -o cutree.o g++ -std=gnu++17 -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I/src/include -I/x64/include -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -DR_NO_REMAP -c daglad.cpp -o daglad.o g++ -std=gnu++17 -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I/src/include -I/x64/include -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -DR_NO_REMAP -c distance.cpp -o distance.o distance.cpp: In function 'void R_distance(double*, int*, int*, double*, int*, int*)': distance.cpp:238:7: error: 'error' was not declared in this scope; did you mean 'perror'? 238 | error("distance(): invalid distance"); | ^~~~~ | perror make: *** [E:/biocbuild/bbs-3.21-bioc/R/etc/x64/Makeconf:296: distance.o] Error 1 ERROR: compilation failed for package 'GLAD' * removing 'E:/biocbuild/bbs-3.21-bioc/tmpdir/RtmpkvPgFc/Rinst224c4a284d85/GLAD' ----------------------------------- ERROR: package installation failed