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VERSION=2.5
RELEASE=20190621
CC := gcc
ifeq ($(BIN),)
BIN := /usr/local/bin
endif
ifeq (0, ${MAKELEVEL})
TIMESTAMP=$(shell date)
endif
ifeq (1, ${DEBUG})
CFLAGS+=-g3 -W -Wall -Wno-unused-but-set-variable -O0 -DDEBUG=1 -DVERSION="$(VERSION)" -DRELEASE="$(RELEASE)" -D_FILE_OFFSET_BITS=64 -D_GNU_SOURCE
else
CFLAGS+=-g3 -W -Wall -Wno-unused-but-set-variable -O4 -DVERSION="$(VERSION)" -DRELEASE="$(RELEASE)" -D_FILE_OFFSET_BITS=64 -D_GNU_SOURCE
endif
GLIBS=-lm -lrt -lpthread -lz $(LDFLAGS)
GENERIC_SRC=mem_share.h chararray.h sort.h list.h pgzf.h sort.h list.h dna.h thread.h filereader.h filewriter.h bitvec.h bit2vec.h bitsvec.h hashset.h
SFX ?=
PROGS=kbm2$(SFX) wtdbg2$(SFX) wtdbg-cns$(SFX) wtpoa-cns$(SFX) pgzf$(SFX)
all: $(PROGS)
kbm2$(SFX): $(GENERIC_SRC) kbm.c kbm.h kbmpoa.h wtpoa.h tripoa.h poacns.h kswx.h ksw.h ksw.c
$(CC) $(LDFLAGS) $(CFLAGS) $(CPPFLAGS) -o $@ kbm.c ksw.c $(GLIBS)
wtdbg2$(SFX): $(GENERIC_SRC) wtdbg.c wtdbg-graph.h wtdbg.h kbm.h kswx.h ksw.h ksw.c kbmpoa.h wtpoa.h tripoa.h poacns.h
$(CC) $(LDFLAGS) $(CFLAGS) $(CPPFLAGS) -o $@ wtdbg.c ksw.c $(GLIBS)
wtdbg-cns$(SFX): $(GENERIC_SRC) wtdbg-cns.c kswx.h ksw.h ksw.c dbgcns.h dagcns.h queue.h general_graph.h
$(CC) $(LDFLAGS) $(CFLAGS) $(CPPFLAGS) -o $@ wtdbg-cns.c ksw.c $(GLIBS)
wtpoa-cns$(SFX): $(GENERIC_SRC) wtpoa.h wtpoa-cns.c poacns.h tripoa.h ksw.h ksw.c
$(CC) $(LDFLAGS) $(CFLAGS) $(CPPFLAGS) -o $@ wtpoa-cns.c ksw.c $(GLIBS)
pgzf$(SFX): mem_share.h sort.h list.h thread.h pgzf.h pgzf.c
$(CC) $(LDFLAGS) $(CFLAGS) $(CPPFLAGS) -o $@ pgzf.c $(GLIBS)
best_sam_hits4longreads: $(GENERIC_SRC) best_sam_hits4longreads.c
$(CC) $(LDFLAGS) $(CFLAGS) $(CPPFLAGS) -o $@ best_sam_hits4longreads.c $(GLIBS)
clean:
rm -f *.o *.gcda *.gcno *.gcov gmon.out $(PROGS)
clear:
rm -f *.o *.gcda *.gcno *.gcov gmon.out
install: $(PROGS)
mkdir -p $(BIN) && cp -fvu $(PROGS) $(BIN)
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