This page was last updated on Wednesday, 15-Nov-2017 13:47:04 CST
https://github.com/PacificBiosciences/pitchfork
wiki
PREFIX = /opt/pacbio WORKDIR = /opt/pitchfork #HAVE_CCACHE = ? #HAVE_ZLIB = /tmp/zlib HAVE_PYTHON = /usr/bin/python HAVE_OPENBLAS = /usr/lib HAVE_BOOST = /usr/include/boost HAVE_CMAKE = /usr/local/bin/cmake #HAVE_HDF5 = /usr/include/hdf5
Based on installation instructions at https://github.com/PacificBiosciences/blasr/wiki/Step-by-step-blasr-installation-example
H5PL.c:(.text+0x3be): warning: Using 'dlopen' in statically linked applications requires at runtime the shared libraries from the glibc version used for linking
g++ -g -O3 -Wno-div-by-zero -I ../common -I /usr/local/lib/libhdf5/include -fpermissive bin/BuildQualityValueProfile.o -static -o bin/buildQualityValueProfile -lpthread -L/usr/local/lib/libhdf5/lib -lhdf5_cpp -lhdf5 -lz /usr/lib/../lib64/libpthread.a(libpthread.o): In function `sem_open': (.text+0x68db): warning: the use of `mktemp' is dangerous, better use `mkstemp' /usr/local/lib/libhdf5/lib/libhdf5.a(H5PL.o): In function `H5PL_term_interface': H5PL.c:(.text+0xa7): undefined reference to `dlclose' /usr/local/lib/libhdf5/lib/libhdf5.a(H5PL.o): In function `H5PL_load': H5PL.c:(.text+0x2e5): undefined reference to `dlsym' H5PL.c:(.text+0x3be): undefined reference to `dlopen' H5PL.c:(.text+0x3d7): undefined reference to `dlsym' H5PL.c:(.text+0x504): undefined reference to `dlclose' H5PL.c:(.text+0x589): undefined reference to `dlerror' H5PL.c:(.text+0x753): undefined reference to `dlclose' collect2: error: ld returned 1 exit status make[1]: *** [bin/buildQualityValueProfile] Error 1
$(CPP) -g $(CPPOPTS) $< $(STATIC) -o $@ -lpthread -L$(HDF5LIBDIR) -l$(HDF5LIBCPP) -l$(HDF5LIB) -lz -ldl