############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R/bin/R CMD build --keep-empty-dirs --no-resave-data DiffBind ### ############################################################################## ############################################################################## * checking for file ‘DiffBind/DESCRIPTION’ ... OK * preparing ‘DiffBind’: * checking DESCRIPTION meta-information ... OK * cleaning src * installing the package to build vignettes ----------------------------------- * installing *source* package ‘DiffBind’ ... ** this is package ‘DiffBind’ version ‘3.21.0’ ** using staged installation ** libs using C compiler: ‘aarch64-unknown-linux-gnu-gcc (GCC) 14.2.0’ using C++ compiler: ‘aarch64-unknown-linux-gnu-g++ (GCC) 14.2.0’ /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -DR_NO_REMAP -DSTRICT_R_HEADERS=1 -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rhtslib/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c RcppExports.cpp -o RcppExports.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -DR_NO_REMAP -DSTRICT_R_HEADERS=1 -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rhtslib/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c bamReader.cpp -o bamReader.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -std=gnu23 -I"/home/biocbuild/R/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -DR_NO_REMAP -DSTRICT_R_HEADERS=1 -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rhtslib/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c bam_plbuf.c -o bam_plbuf.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -DR_NO_REMAP -DSTRICT_R_HEADERS=1 -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rhtslib/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c bedReader.cpp -o bedReader.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -DR_NO_REMAP -DSTRICT_R_HEADERS=1 -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rhtslib/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c bitBucket.cpp -o bitBucket.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -DR_NO_REMAP -DSTRICT_R_HEADERS=1 -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rhtslib/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c croi_func.cpp -o croi_func.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -DR_NO_REMAP -DSTRICT_R_HEADERS=1 -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rhtslib/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c croi_main.cpp -o croi_main.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -DR_NO_REMAP -DSTRICT_R_HEADERS=1 -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rhtslib/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c densitySet.cpp -o densitySet.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -DR_NO_REMAP -DSTRICT_R_HEADERS=1 -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rhtslib/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c iBucket.cpp -o iBucket.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -DR_NO_REMAP -DSTRICT_R_HEADERS=1 -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rhtslib/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c interval.cpp -o interval.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -DR_NO_REMAP -DSTRICT_R_HEADERS=1 -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rhtslib/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c intervalDensity.cpp -o intervalDensity.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -DR_NO_REMAP -DSTRICT_R_HEADERS=1 -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rhtslib/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c intervalNode.cpp -o intervalNode.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -DR_NO_REMAP -DSTRICT_R_HEADERS=1 -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rhtslib/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c intervalSet.cpp -o intervalSet.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -DR_NO_REMAP -DSTRICT_R_HEADERS=1 -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rhtslib/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c intervalTree.cpp -o intervalTree.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -DR_NO_REMAP -DSTRICT_R_HEADERS=1 -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rhtslib/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c merge.cpp -o merge.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -std=gnu23 -I"/home/biocbuild/R/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -DR_NO_REMAP -DSTRICT_R_HEADERS=1 -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rhtslib/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c mergeOne.c -o mergeOne.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -DR_NO_REMAP -DSTRICT_R_HEADERS=1 -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rhtslib/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c nodeGroup.cpp -o nodeGroup.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -DR_NO_REMAP -DSTRICT_R_HEADERS=1 -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rhtslib/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c peakOrder.cpp -o peakOrder.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -DR_NO_REMAP -DSTRICT_R_HEADERS=1 -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rhtslib/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c reader.cpp -o reader.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -DR_NO_REMAP -DSTRICT_R_HEADERS=1 -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rhtslib/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c sequence.cpp -o sequence.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -DR_NO_REMAP -DSTRICT_R_HEADERS=1 -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rhtslib/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c util.cpp -o util.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -shared -L/home/biocbuild/R/R/lib -L/usr/local/lib -o DiffBind.so RcppExports.o bamReader.o bam_plbuf.o bedReader.o bitBucket.o croi_func.o croi_main.o densitySet.o iBucket.o interval.o intervalDensity.o intervalNode.o intervalSet.o intervalTree.o merge.o mergeOne.o nodeGroup.o peakOrder.o reader.o sequence.o util.o /home/biocbuild/R/R-devel_2025-02-19/site-library/Rhtslib/usrlib/libhts.a -lcurl -lbz2 -llzma -lz -L/home/biocbuild/R/R/lib -lR /usr/bin/ld: cannot find -lcurl: No such file or directory collect2: error: ld returned 1 exit status make: *** [/home/biocbuild/R/R/share/make/shlib.mk:10: DiffBind.so] Error 1 ERROR: compilation failed for package ‘DiffBind’ * removing ‘/home/biocbuild/tmp/RtmpdxQdko/Rinst823fc6e09aa53/DiffBind’ ----------------------------------- ERROR: package installation failed