diff options
Diffstat (limited to 'PKGBUILD')
| -rw-r--r-- | PKGBUILD | 13 |
1 files changed, 3 insertions, 10 deletions
@@ -1,13 +1,13 @@ # Maintainer: Christian Krause ("wookietreiber") <kizkizzbangbang@googlemail.com> pkgname=blasr-git -pkgver=r114.b5b717f +pkgver=r122.9593a09 pkgrel=1 pkgdesc="The PacBio long read aligner" arch=('i686' 'x86_64') url="https://github.com/PacificBiosciences/blasr" license=('custom') -depends=('hdf5-cpp-fortran' 'htslib') +depends=('hdf5-cpp-fortran') makedepends=('python2') conflicts=('blasr') provides=('blasr') @@ -34,16 +34,9 @@ prepare() { # we want to link against shared libs sed -e 's|LDFLAGS := $(LDFLAGS1) $(HDF5_LIB)/libhdf5_cpp.a $(HDF5_LIB)/libhdf5.a -lpthread -lz -ldl|LDFLAGS += $(LDFLAGS1) -lhdf5_cpp -lhdf5 -lpthread -lz -ldl|' \ - -e 's|LIBS += $(HDF5_LIB)/libhdf5_cpp.a $(HDF5_LIB)/libhdf5.a|LIBS += -lhdf5_cpp -lhdf5|' \ - -i common.mk \ + -i libcpp/unittest/normal.defines.mk \ libcpp/unittest/common.mk - # use system provided htslib - sed -e 's|HTSLIB_INCLUDE := $(PBBAM)/../htslib/htslib|HTSLIB_INCLUDE := /usr/include|' \ - -e 's|HTSLIB_LIB := $(PBBAM)/../htslib|HTSLIB_LIB := /usr/lib|' \ - -e 's|$(HTSLIB_LIB)/libhts.a|$(HTSLIB_LIB)/libhts.so|' \ - -i common.mk - sed -e 's|DEP_LIBS += ${LIBPBDATA_LIB} ${HDF5_LIB} ${PBBAM_LIB} ${HTSLIB_LIB} ${ZLIB_LIB}|DEP_LIBS += ${LIBPBDATA_LIB} ${PBBAM_LIB} ${HTSLIB_LIB} ${ZLIB_LIB}|' \ -i libcpp/alignment/makefile \ libcpp/hdf/makefile |