mirror of
https://github.com/chhylp123/hifiasm.git
synced 2026-10-08 12:08:13 +08:00
r852 -> hybrid correction
This commit is contained in:
chhylp123
@@ -1,83 +1,83 @@
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CXX= g++
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CC= gcc
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CXXFLAGS= -g -O3 -msse4.2 -mpopcnt -fomit-frame-pointer -Wall
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CFLAGS= $(CXXFLAGS)
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CPPFLAGS=
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INCLUDES=
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OBJS= CommandLines.o Process_Read.o Assembly.o Hash_Table.o \
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POA.o Correct.o Levenshtein_distance.o Overlaps.o Trio.o kthread.o Purge_Dups.o \
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htab.o hist.o sketch.o anchor.o extract.o sys.o hic.o rcut.o horder.o ecovlp.o\
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tovlp.o inter.o kalloc.o gfa_ut.o gchain_map.o
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EXE= hifiasm
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LIBS= -lz -lpthread -lm
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ifneq ($(asan),)
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CXXFLAGS+=-fsanitize=address
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LIBS+=-fsanitize=address
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endif
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.SUFFIXES:.cpp .c .o
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.PHONY:all clean depend
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.cpp.o:
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$(CXX) -c $(CXXFLAGS) $(CPPFLAGS) $(INCLUDES) $< -o $@
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.c.o:
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$(CC) -c $(CFLAGS) $(CPPFLAGS) $(INCLUDES) $< -o $@
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all:$(EXE)
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$(EXE):$(OBJS) main.o
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$(CXX) $(CXXFLAGS) $^ -o $@ $(LIBS)
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clean:
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rm -fr gmon.out *.o a.out $(EXE) *~ *.a *.dSYM
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depend:
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(LC_ALL=C; export LC_ALL; makedepend -Y -- $(CPPFLAGS) $(DFLAGS) -- *.cpp)
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# DO NOT DELETE
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Assembly.o: Assembly.h CommandLines.h Process_Read.h Overlaps.h kvec.h kdq.h
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Assembly.o: Hash_Table.h htab.h POA.h Correct.h Levenshtein_distance.h
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Assembly.o: kthread.h ecovlp.h
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CommandLines.o: CommandLines.h ketopt.h
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Correct.o: Correct.h Hash_Table.h htab.h Process_Read.h Overlaps.h kvec.h
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Correct.o: kdq.h CommandLines.h Levenshtein_distance.h POA.h Assembly.h
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Correct.o: ksort.h
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Hash_Table.o: Hash_Table.h htab.h Process_Read.h Overlaps.h kvec.h kdq.h
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Hash_Table.o: CommandLines.h ksort.h
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Levenshtein_distance.o: Levenshtein_distance.h
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Output.o: Output.h CommandLines.h
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Overlaps.o: Overlaps.h kvec.h kdq.h ksort.h Process_Read.h CommandLines.h
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Overlaps.o: Hash_Table.h htab.h Correct.h Levenshtein_distance.h POA.h
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Overlaps.o: Purge_Dups.h
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POA.o: POA.h Hash_Table.h htab.h Process_Read.h Overlaps.h kvec.h kdq.h
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POA.o: CommandLines.h Correct.h Levenshtein_distance.h
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Process_Read.o: Process_Read.h Overlaps.h kvec.h kdq.h CommandLines.h
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Purge_Dups.o: ksort.h Purge_Dups.h kvec.h kdq.h Overlaps.h Hash_Table.h
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Purge_Dups.o: htab.h Process_Read.h CommandLines.h Correct.h
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Purge_Dups.o: Levenshtein_distance.h POA.h kthread.h
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ecovlp.o: Hash_Table.h Process_Read.h Overlaps.h kthread.h
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Trio.o: khashl.h kthread.h kseq.h Process_Read.h Overlaps.h kvec.h kdq.h
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Trio.o: CommandLines.h htab.h
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anchor.o: htab.h Process_Read.h Overlaps.h kvec.h kdq.h CommandLines.h
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anchor.o: ksort.h Hash_Table.h
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extract.o: Process_Read.h Overlaps.h kvec.h kdq.h CommandLines.h khashl.h
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extract.o: kseq.h
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hist.o: htab.h Process_Read.h Overlaps.h kvec.h kdq.h CommandLines.h
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htab.o: kthread.h khashl.h kseq.h ksort.h htab.h Process_Read.h Overlaps.h
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htab.o: kvec.h kdq.h CommandLines.h
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kthread.o: kthread.h
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main.o: CommandLines.h Process_Read.h Overlaps.h kvec.h kdq.h Assembly.h
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main.o: Levenshtein_distance.h htab.h
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sketch.o: kvec.h htab.h Process_Read.h Overlaps.h kdq.h CommandLines.h
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sys.o: htab.h Process_Read.h Overlaps.h kvec.h kdq.h CommandLines.h
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hic.o: hic.h
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rcut.o: rcut.h
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horder.o: horder.h
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tovlp.o: tovlp.h
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inter.o: inter.h Process_Read.h
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kalloc.o: kalloc.h
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gfa_ut.o: Overlaps.h
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CXX= g++
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CC= gcc
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CXXFLAGS= -g -O3 -msse4.2 -mpopcnt -fomit-frame-pointer -Wall
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CFLAGS= $(CXXFLAGS)
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CPPFLAGS=
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INCLUDES=
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OBJS= CommandLines.o Process_Read.o Assembly.o Hash_Table.o \
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POA.o Correct.o Levenshtein_distance.o Overlaps.o Trio.o kthread.o Purge_Dups.o \
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htab.o hist.o sketch.o anchor.o extract.o sys.o hic.o rcut.o horder.o ecovlp.o\
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tovlp.o inter.o kalloc.o gfa_ut.o gchain_map.o
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EXE= hifiasm
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LIBS= -lz -lpthread -lm
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ifneq ($(asan),)
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CXXFLAGS+=-fsanitize=address
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LIBS+=-fsanitize=address
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endif
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.SUFFIXES:.cpp .c .o
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.PHONY:all clean depend
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.cpp.o:
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$(CXX) -c $(CXXFLAGS) $(CPPFLAGS) $(INCLUDES) $< -o $@
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.c.o:
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$(CC) -c $(CFLAGS) $(CPPFLAGS) $(INCLUDES) $< -o $@
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all:$(EXE)
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$(EXE):$(OBJS) main.o
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$(CXX) $(CXXFLAGS) $^ -o $@ $(LIBS)
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clean:
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rm -fr gmon.out *.o a.out $(EXE) *~ *.a *.dSYM
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depend:
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(LC_ALL=C; export LC_ALL; makedepend -Y -- $(CPPFLAGS) $(DFLAGS) -- *.cpp)
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# DO NOT DELETE
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Assembly.o: Assembly.h CommandLines.h Process_Read.h Overlaps.h kvec.h kdq.h
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Assembly.o: Hash_Table.h htab.h POA.h Correct.h Levenshtein_distance.h
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Assembly.o: kthread.h ecovlp.h
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CommandLines.o: CommandLines.h ketopt.h
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Correct.o: Correct.h Hash_Table.h htab.h Process_Read.h Overlaps.h kvec.h
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Correct.o: kdq.h CommandLines.h Levenshtein_distance.h POA.h Assembly.h
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Correct.o: ksort.h
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Hash_Table.o: Hash_Table.h htab.h Process_Read.h Overlaps.h kvec.h kdq.h
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Hash_Table.o: CommandLines.h ksort.h
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Levenshtein_distance.o: Levenshtein_distance.h
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Output.o: Output.h CommandLines.h
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Overlaps.o: Overlaps.h kvec.h kdq.h ksort.h Process_Read.h CommandLines.h
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Overlaps.o: Hash_Table.h htab.h Correct.h Levenshtein_distance.h POA.h
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Overlaps.o: Purge_Dups.h
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POA.o: POA.h Hash_Table.h htab.h Process_Read.h Overlaps.h kvec.h kdq.h
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POA.o: CommandLines.h Correct.h Levenshtein_distance.h
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Process_Read.o: Process_Read.h Overlaps.h kvec.h kdq.h CommandLines.h
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Purge_Dups.o: ksort.h Purge_Dups.h kvec.h kdq.h Overlaps.h Hash_Table.h
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Purge_Dups.o: htab.h Process_Read.h CommandLines.h Correct.h
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Purge_Dups.o: Levenshtein_distance.h POA.h kthread.h
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ecovlp.o: Hash_Table.h Process_Read.h Overlaps.h kthread.h
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Trio.o: khashl.h kthread.h kseq.h Process_Read.h Overlaps.h kvec.h kdq.h
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Trio.o: CommandLines.h htab.h
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anchor.o: htab.h Process_Read.h Overlaps.h kvec.h kdq.h CommandLines.h
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anchor.o: ksort.h Hash_Table.h
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extract.o: Process_Read.h Overlaps.h kvec.h kdq.h CommandLines.h khashl.h
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extract.o: kseq.h
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hist.o: htab.h Process_Read.h Overlaps.h kvec.h kdq.h CommandLines.h
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htab.o: kthread.h khashl.h kseq.h ksort.h htab.h Process_Read.h Overlaps.h
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htab.o: kvec.h kdq.h CommandLines.h
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kthread.o: kthread.h
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main.o: CommandLines.h Process_Read.h Overlaps.h kvec.h kdq.h Assembly.h
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main.o: Levenshtein_distance.h htab.h
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sketch.o: kvec.h htab.h Process_Read.h Overlaps.h kdq.h CommandLines.h
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sys.o: htab.h Process_Read.h Overlaps.h kvec.h kdq.h CommandLines.h
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hic.o: hic.h
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rcut.o: rcut.h
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horder.o: horder.h
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tovlp.o: tovlp.h
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inter.o: inter.h Process_Read.h
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kalloc.o: kalloc.h
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gfa_ut.o: Overlaps.h
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gchain_map.o: gchain_map.h
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