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.PHONY=all cramtests
SRCDIR:=$(dir $(realpath $(lastword $(MAKEFILE_LIST))))
-include ${CURDIR}/../defines.mk
include ${SRCDIR}/../rules.mk
CXXOPTS := -std=c++0x -pedantic \
-Wall -Wextra -Wno-overloaded-virtual \
-MMD -MP
CXXFLAGS += ${CXXOPTS} ${GCXXFLAGS}
EXE = sa2bwt bwt2sa excrep evolve bsdb simpleShredder swMatcher \
samodify sals printTupleCountTable cmpH5StoreQualityByContext
LD_LIBRARY_PATH=${HDF5_LIB}:${LIBBLASR_LIB}:${LIBPBIHDF_LIB}:${LIBPBDATA_LIB}
export LD_LIBRARY_PATH
vpath %.cpp ${SRCDIR}
all: ${EXE}
${EXE}:
${CXX} -o $@ $< ${CXXFLAGS} ${CPPFLAGS} -MF"${@:%=%.d}" ${STATIC} ${LDFLAGS} ${LDLIBS}
sa2bwt: SuffixArrayToBWT.o
bwt2sa: BwtToSuffixArray.o
excrep: ExciseRepeats.o
evolve: Evolve.o
bsdb: BuildSequenceDB.o
simpleShredder: SimpleShredder.o
swMatcher: SWMatcher.o
samodify: SAModify.o
sals: SALS.o
printTupleCountTable: PrintTupleCountTable.o
cmpH5StoreQualityByContext: StoreQualityByContextFromCmpH5.o
CTESTS := \
ctest/printTupleCountTable.t ctest/sals.t ctest/swmatcher.t \
ctest/bwt2sa.t ctest/cmpH5StoreQualityByContext.t ctest/sa2bwt.t ctest/samodify.t
cramtests: ${EXE}
cram -v --shell=/bin/bash ${CTESTS}
clean:
@rm -f ${EXE}
@rm -f *.d *.o
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