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can be compiled on Linux

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This commit is contained in:
Heng Li
2019-01-01 10:04:03 -05:00
parent 58f4210dea
commit f2f425890d
2 changed files with 11 additions and 13 deletions
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Makefile
+4 -6
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@@ -3,6 +3,7 @@ CPPFLAGS= -DHAVE_KALLOC
INCLUDES=
OBJS= kthread.o kalloc.o misc.o bseq.o sketch.o sdust.o options.o index.o chain.o align.o hit.o map.o format.o pe.o esterr.o splitidx.o ksw2_ll_sse.o
OBJS_SSE= ksw2_extz2_sse41.o ksw2_extd2_sse41.o ksw2_exts2_sse41.o ksw2_extz2_sse2.o ksw2_extd2_sse2.o ksw2_exts2_sse2.o
DISPATCH_FLAG=-msse4.1
PROG= minimap2
PROG_EXTRA= sdust minimap2-lite
LIBS= -lm -lz -lpthread
@@ -14,9 +15,11 @@ ifeq ($(avx2),)
OBJS+=$(OBJS_SSE) ksw2_dispatch.o
else
OBJS+=ksw2_extd2_avx2.o $(OBJS_SSE) ksw2_dispatch.o
DISPATCH_FLAG=-mavx2
endif
else
OBJS+=ksw2_extd2_avx512.o ksw2_extd2_avx2.o $(OBJS_SSE) ksw2_dispatch.o
DISPATCH_FLAG=-mavx512bw
endif
else # if sse2only is defined
OBJS+=ksw2_extz2_sse.o ksw2_extd2_sse.o ksw2_exts2_sse.o
@@ -84,13 +87,8 @@ ksw2_exts2_sse41.o:ksw2_exts2_sse.c ksw2.h kalloc.h
ksw2_exts2_sse2.o:ksw2_exts2_sse.c ksw2.h kalloc.h
$(CC) -c $(CFLAGS) -msse2 -mno-sse4.1 $(CPPFLAGS) -DKSW_CPU_DISPATCH -DKSW_SSE2_ONLY $(INCLUDES) $< -o $@
ifeq ($(avx2),)
ksw2_dispatch.o:ksw2_dispatch.c ksw2.h
$(CC) -c $(CFLAGS) -msse4.1 $(CPPFLAGS) -DKSW_CPU_DISPATCH $(INCLUDES) $< -o $@
else
ksw2_dispatch.o:ksw2_dispatch.c ksw2.h
$(CC) -c $(CFLAGS) -mavx2 $(CPPFLAGS) -DKSW_CPU_DISPATCH $(INCLUDES) $< -o $@
endif
$(CC) -c $(CFLAGS) $(DISPATCH_FLAG) $(CPPFLAGS) -DKSW_CPU_DISPATCH $(INCLUDES) $< -o $@
# NEON-specific targets on ARM