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for purge_dup

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chhylp123
2020-04-05 11:10:56 -04:00
parent 3c1d3cf6a1
commit ac3fcc339a
8 changed files with 4101 additions and 438 deletions
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Makefile
+3 -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 Trio.o kthread.o #ksw2_extz2_sse.o
POA.o Correct.o Levenshtein_distance.o Overlaps.o Trio.o kthread.o Purge_Dups.o #ksw2_extz2_sse.o
EXE= hifiasm
LIBS= -lz -lpthread -lm #-fsanitize=address -fno-omit-frame-pointer
@@ -44,7 +44,7 @@ Hash_Table.o: POA.h ksort.h
Levenshtein_distance.o: Levenshtein_distance.h
Output.o: Output.h CommandLines.h
Overlaps.o: Overlaps.h kvec.h kdq.h ksort.h Process_Read.h kseq.h
Overlaps.o: CommandLines.h
Overlaps.o: CommandLines.h Purge_Dups.h
POA.o: POA.h Hash_Table.h khash.h kmer.h Process_Read.h kseq.h Overlaps.h
POA.o: kvec.h kdq.h CommandLines.h Correct.h Levenshtein_distance.h
Process_Read.o: Process_Read.h kseq.h Overlaps.h kvec.h kdq.h CommandLines.h
@@ -53,4 +53,5 @@ 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
Purge_Dups.o: Purge_Dups.h Overlaps.h Hash_Table.h Correct.h ksort.h
#ksw2_extz2_sse.o: ksw2.h