/usr/bin/c++    -Wall -Wextra -Werror -fPIC -fsigned-char -Wno-deprecated-declarations -msse3 -O3 -g  -std=c++11 -Wno-unused-parameter -Wno-unused-variable -Wno-unused-function -Wno-error=unused-but-set-variable -Wno-error=unused-but-set-parameter    CMakeFiles/SamVsSam.dir/SamUtils/SamVsSam.cpp.o  -o SamVsSam -rdynamic libion-analysis.a ../samtools-1.2+ion2/libbam.a ../htslib-1.2.1+ion0/libhts.a -lpthread -ldl ../armadillo-6.100.0+ion0-install/lib/libarmadillo.a -lhdf5 -lhdf5_hl -lhdf5 -lpthread -lz -ldl -lm -Wl,-Bstatic -lboost_serialization -Wl,-Bdynamic -lm -lblas -llapack libfile-io.a -lz -lrt -ldl