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.PHONY: all check test_target_hit test_alngraph test_alignment test_simple_aligner
all:
THISDIR:=$(dir $(lastword ${MAKEFILE_LIST}))
-include ${CURDIR}/../../defines.mk
SRCDIR := ${THISDIR}
INCDIRS := . \
${SRCDIR} \
${SRCDIR}/../../src/cpp \
${DAZZ_DB_INCLUDE} \
${DALIGNER_INCLUDE} \
${LIBBLASR_INCLUDE} \
${LIBPBDATA_INCLUDE} \
${LIBPBIHDF_INCLUDE} \
${PBBAM_INCLUDE} \
${HDF5_INCLUDE} \
${BOOST_INCLUDE} \
${GTEST_INCLUDE} \
third-party
LIBDIRS := \
${LIBBLASR_LIB} \
${LIBPBDATA_LIB} \
${LIBPBIHDF_LIB} \
${PBBAM_LIB} \
${HDF5_LIB} \
${GCC_LIB} \
${ZLIB_LIB}
PTHREAD_LIBFLAGS:=-lpthread
LDLIBS+= \
${LIBBLASR_LIBFLAGS} \
${LIBPBDATA_LIBFLAGS} \
${LIBPBIHDF_LIBFLAGS} \
${PBBAM_LIBFLAGS} \
${HDF5_LIBFLAGS} \
${HTSLIB_LIBS} \
${ZLIB_LIBFLAGS} \
${PTHREAD_LIBFLAGS} \
${DL_LIBFLAGS}
CPPFLAGS+=$(patsubst %,-I%,${INCDIRS}) $(HTSLIB_CFLAGS)
LDFLAGS+=$(patsubst %,-L %,${LIBDIRS})
# For fused-src, gtest-all.cc includes gtest/*.
# For non-fused, gtest-all.cc includes src/gtest-*.
# So we add -I ${GTEST_SRC}/.. for the latter case.
GTEST_CPPFLAGS += -isystem $(GTEST_INCLUDE) -isystem ${GTEST_SRC}/..
GTEST_CXXFLAGS += -g -Wall -Wextra -pthread
CXXFLAGS += -O3
GTEST_OBJECTS := gtest-all.o gtest_main.o
DAZCON_OBJECTS := DB.o QV.o align.o Alignment.o \
DazAlnProvider.o
PBDAGCON_OBJECTS := AlnGraphBoost.o Alignment.o \
SimpleAligner.o
pbdagcon_testexes := test-alngraph \
test-alignment \
test-simple_aligner \
${null}
dazcon_testexes := test-target_hit \
test-target \
${null}
# Remove the test from the broken_testexes variable, once fixed.
broken_testexes := test-target \
${null}
testexes := ${pbdagcon_testexes} ${dazcon_testexes}
# Remove broken tests exes from the testexes list
testexes := $(filter-out ${broken_testexes},${testexes})
empty:=
space:=${empty} ${empty}
ldp+=$(subst ${space},:,${LIBDIRS}):${LD_LIBRARY_PATH}
#export LD_LIBRARY_PATH
vpath %.c ${THISDIR}/../../src/cpp
vpath %.cpp ${THISDIR}/../../src/cpp
vpath %.cc ${GTEST_SRC}
vpath align.c ${DALIGNER_SRC}
vpath DB.c ${DAZZ_DB_SRC}
vpath QV.c ${DAZZ_DB_SRC}
#VALGRIND?=/mnt/software/v/valgrind/3.10.1/bin/valgrind --leak-check=full
BUILDMSG = "=== Building $@ ==="
${GTEST_OBJECTS}: CXXFLAGS+=${GTEST_CXXFLAGS}
${GTEST_OBJECTS}: CPPFLAGS+=${GTEST_CPPFLAGS}
all: check
check: gtest-run
gtest-run: $(testexes:%=%-gtestrun)
gtest-build: ${testexes}
xml:
mkdir xml
%-gtestrun: % | xml
LD_LIBRARY_PATH=${ldp} PBDAGCON_TEST_DATA_DIR=${THISDIR} ${VALGRIND} ./$< --gtest_output=xml:xml/${<F}.xml
test-%:
${CXX} -o $@ $^ ${LDFLAGS} ${LDLIBS}
# dazcon test executables:
test-target_hit: ${GTEST_OBJECTS} ${DAZCON_OBJECTS} TargetHitTest.o
test-target: ${GTEST_OBJECTS} ${DAZCON_OBJECTS} TargetTest.o
# pbdagcon test executables:
test-alngraph: ${GTEST_OBJECTS} ${PBDAGCON_OBJECTS} AlnGraphBoostTest.o
test-alignment: ${GTEST_OBJECTS} ${PBDAGCON_OBJECTS} AlignmentTest.o
test-simple_aligner: ${GTEST_OBJECTS} ${PBDAGCON_OBJECTS} SimpleAlignerTest.o
clean:
${RM} ${SRCDIR}/*.o
${RM} *.o
${RM} test_*
|
