diff options
| author | Christian Krause | 2015-07-28 13:28:08 +0200 |
|---|---|---|
| committer | Christian Krause | 2015-07-28 13:28:08 +0200 |
| commit | bd6eb83bf503d5f926c035337a58e312679b902e (patch) | |
| tree | dd5ff93833b65af4bdfdb597d2be9eb1fe3f6fe3 | |
| parent | 08f5a1daf4739879925a088ebb3948a6480e423e (diff) | |
| download | aur-bd6eb83bf503d5f926c035337a58e312679b902e.tar.gz | |
blasr-git-r122.9593a09-1
| -rw-r--r-- | .SRCINFO | 3 | ||||
| -rw-r--r-- | PKGBUILD | 13 |
2 files changed, 4 insertions, 12 deletions
@@ -1,6 +1,6 @@ pkgbase = blasr-git pkgdesc = The PacBio long read aligner - pkgver = r114.b5b717f + pkgver = r122.9593a09 pkgrel = 1 url = https://github.com/PacificBiosciences/blasr arch = i686 @@ -8,7 +8,6 @@ pkgbase = blasr-git license = custom makedepends = python2 depends = hdf5-cpp-fortran - depends = htslib provides = blasr conflicts = blasr source = blasr-git::git+https://github.com/PacificBiosciences/blasr @@ -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 |