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|
SHELL=bash
THISDIR:=$(dir $(realpath $(lastword $(MAKEFILE_LIST))))
SRCDIR:=${THISDIR}
-include ${CURDIR}/defines.mk
include ${THISDIR}/../rules.mk
MKDIR := mkdir
null :=
space := $(null) $(null)
broken_test_sources := \
${SRCDIR}/alignment/format/SAMHeaderPrinter_gtest.cpp \
$(null)
gtest_sources := $(GTEST_SRCDIR)/gtest/gtest-all.cc \
$(GTEST_SRCDIR)/gtest/gtest_main.cc \
$(null)
test_sources := $(wildcard ${SRCDIR}/pbdata/*.cpp) \
$(wildcard ${SRCDIR}/pbdata/utils/*.cpp) \
$(wildcard ${SRCDIR}/pbdata/metagenome/*.cpp) \
$(wildcard ${SRCDIR}/pbdata/saf/*.cpp) \
$(wildcard ${SRCDIR}/pbdata/reads/*.cpp) \
$(wildcard ${SRCDIR}/pbdata/qvs/*.cpp) \
\
$(wildcard ${SRCDIR}/hdf/*.cpp) \
\
$(wildcard ${SRCDIR}/alignment/*.cpp) \
$(wildcard ${SRCDIR}/alignment/utils/*.cpp) \
$(wildcard ${SRCDIR}/alignment/query/*.cpp) \
$(wildcard ${SRCDIR}/alignment/datastructures/alignment/*.cpp) \
$(wildcard ${SRCDIR}/alignment/files/*.cpp) \
$(wildcard ${SRCDIR}/alignment/format/*.cpp) \
$(null)
# Remove broken tests from the test_sources list
test_sources := $(filter-out $(broken_test_sources),$(test_sources))
paths := alignment alignment/files alignment/datastructures/alignment alignment/utils alignment/format \
pbdata pbdata/utils pbdata/metagenome pbdata/saf pbdata/reads pbdata/qvs \
hdf alignment/query
paths := $(patsubst %,${SRCDIR}%,${paths}) ${GTEST_SRCDIR}/gtest
sources := $(gtest_sources) $(test_sources)
sources := $(notdir ${sources})
objects := $(patsubst %.cc,%.o,$(filter %.cc,$(sources))) \
$(patsubst %.cpp,%.o,$(filter %.cpp,$(sources))) \
$(null)
dependencies:=$(objects:%.o=%.d)
INCLUDES+= \
${SRCDIR} \
${SRCDIR}/../alignment \
$(GTEST_INC) \
$(LIBBLASR_INC) \
$(LIBPBIHDF_INC) \
$(LIBPBDATA_INC) \
$(PBBAM_INC) \
$(HTSLIB_INC) \
$(HDF5_INC) \
$(BOOST_INC) \
$(null)
LIBS+= \
$(LIBBLASR_LIB) \
$(LIBPBIHDF_LIB) \
$(LIBPBDATA_LIB) \
$(PBBAM_LIB) \
$(HTSLIB_LIB) \
$(HDF5_LIB) \
$(HDF5_CPP_LIB) \
$(ZLIB_LIB) \
$(GCC_LIB) \
$(null)
ldlibs := -lblasr -lpbihdf -lpbdata -lpbbam -lhts -lhdf5_cpp -lhdf5 -lz
sys_ldlibs := -lpthread -ldl -lrt
cxxopts := -std=c++11 -Wno-div-by-zero
cxxflags := -O3
#cppflags := $(patsubst %,-I%,${includes})
ldflags := $(patsubst %,-L%,${LIBS}) $(sys_ldflags)
override CPPFLAGS := $(cppflags) $(CPPFLAGS)
override CXXFLAGS := $(cxxflags) $(cxxopts) $(CXXFLAGS)
override LDLIBS := $(ldlibs) $(sys_ldlibs) $(LDLIBS)
override LDFLAGS := $(ldflags) $(LDFLAGS)
COMPILE.cpp = $(CXX) $(CXXFLAGS) $(CPPFLAGS) $(TARGET_ARCH) -c
COMPILE.cc = $(COMPILE.cpp)
LINK.o = $(CXX) $(LDFLAGS) $(TARGET_ARCH)
vpath %.cpp ${paths}
vpath %.cc ${paths}
all: libblasr-test-runner
libblasr-test-runner: $(objects)
$(LINK.o) $^ $(LDLIBS) -o $@
gtest: libblasr-test-runner
LD_LIBRARY_PATH=$(subst $(space),:,$(strip $(LIBS))) ./$< --gtest_output=xml:./xml/all.xml
# Build objects
%.o: %.cpp
$(COMPILE.cpp) -o $@ $<
%.o: %.cc
$(COMPILE.cc) -o $@ $<
clean:
$(RM) -r $(OUTDIR) *.o libblasr-test-runner
-include ${dependencies}
depend: $(dependencies:.d=.depend)
|
