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new ec model

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chhylp123
2024-06-30 19:53:51 -04:00
parent 70fd9a0b1f
commit d5f8a8a6c0
12 changed files with 2746 additions and 52 deletions
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Makefile
+3 -2
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@@ -6,7 +6,7 @@ CPPFLAGS=
INCLUDES=
OBJS= CommandLines.o Process_Read.o Assembly.o Hash_Table.o \
POA.o Correct.o Levenshtein_distance.o Overlaps.o Trio.o kthread.o Purge_Dups.o \
htab.o hist.o sketch.o anchor.o extract.o sys.o hic.o rcut.o horder.o \
htab.o hist.o sketch.o anchor.o extract.o sys.o hic.o rcut.o horder.o ecovlp.o\
tovlp.o inter.o kalloc.o gfa_ut.o gchain_map.o
EXE= hifiasm
LIBS= -lz -lpthread -lm
@@ -40,7 +40,7 @@ depend:
Assembly.o: Assembly.h CommandLines.h Process_Read.h Overlaps.h kvec.h kdq.h
Assembly.o: Hash_Table.h htab.h POA.h Correct.h Levenshtein_distance.h
Assembly.o: kthread.h
Assembly.o: kthread.h ecovlp.h
CommandLines.o: CommandLines.h ketopt.h
Correct.o: Correct.h Hash_Table.h htab.h Process_Read.h Overlaps.h kvec.h
Correct.o: kdq.h CommandLines.h Levenshtein_distance.h POA.h Assembly.h
@@ -58,6 +58,7 @@ Process_Read.o: Process_Read.h Overlaps.h kvec.h kdq.h CommandLines.h
Purge_Dups.o: ksort.h Purge_Dups.h kvec.h kdq.h Overlaps.h Hash_Table.h
Purge_Dups.o: htab.h Process_Read.h CommandLines.h Correct.h
Purge_Dups.o: Levenshtein_distance.h POA.h kthread.h
ecovlp.o: Hash_Table.h Process_Read.h Overlaps.h kthread.h
Trio.o: khashl.h kthread.h kseq.h Process_Read.h Overlaps.h kvec.h kdq.h
Trio.o: CommandLines.h htab.h
anchor.o: htab.h Process_Read.h Overlaps.h kvec.h kdq.h CommandLines.h