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for hifiasm 3.0

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chhylp123
2020-03-22 16:54:32 -04:00
parent 6ae51c84f6
commit c72d419711
16 changed files with 38378 additions and 654 deletions
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Makefile
+4 -2
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@@ -3,7 +3,7 @@ CXXFLAGS= -g -O3 -msse4.2 -mpopcnt -fomit-frame-pointer -Wall #-fsanitize=addres
CPPFLAGS=
INCLUDES=
OBJS= Output.o CommandLines.o Process_Read.o Assembly.o kmer.o Hash_Table.o \
POA.o Correct.o Levenshtein_distance.o Overlaps.o #ksw2_extz2_sse.o
POA.o Correct.o Levenshtein_distance.o Overlaps.o Trio.o kthread.o #ksw2_extz2_sse.o
EXE= hifiasm
LIBS= -lz -lpthread -lm #-fsanitize=address -fno-omit-frame-pointer
@@ -33,7 +33,7 @@ depend:
Assembly.o: Assembly.h Process_Read.h kseq.h Overlaps.h kvec.h kdq.h
Assembly.o: CommandLines.h kmer.h Hash_Table.h khash.h POA.h Correct.h
Assembly.o: Levenshtein_distance.h Output.h
Assembly.o: Levenshtein_distance.h Output.h Trio.h
CommandLines.o: CommandLines.h ketopt.h
Correct.o: Correct.h Hash_Table.h khash.h kmer.h Process_Read.h kseq.h
Correct.o: Overlaps.h kvec.h kdq.h CommandLines.h Levenshtein_distance.h
@@ -51,4 +51,6 @@ Process_Read.o: Process_Read.h kseq.h Overlaps.h kvec.h kdq.h CommandLines.h
kmer.o: kmer.h Process_Read.h kseq.h Overlaps.h kvec.h kdq.h CommandLines.h
main.o: CommandLines.h Process_Read.h kseq.h Overlaps.h kvec.h kdq.h
main.o: Assembly.h Levenshtein_distance.h
Trio.o: Trio.h khashl.h kthread.h Process_Read.h CommandLines.h
kthread.o: kthread.h
#ksw2_extz2_sse.o: ksw2.h