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TAL submodule

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This commit is contained in:
Saurabh
2021-11-27 10:42:22 -05:00
committed by Heng Li
parent ba2f19ba37
commit ba186a4c78
4 changed files with 7 additions and 1 deletions
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.gitmodules
+3
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@@ -1,3 +1,6 @@
[submodule "lib/simde"] [submodule "lib/simde"]
path = lib/simde path = lib/simde
url = https://github.com/nemequ/simde.git url = https://github.com/nemequ/simde.git
[submodule "ext/TAL"]
path = ext/TAL
url = https://github.com/IntelLabs/Trans-Omics-Acceleration-Library.git
Makefile
+1
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@@ -37,6 +37,7 @@ endif
#INCLUDES= #INCLUDES=
#INCLUDES= -I./ext/TAL_offline/src/LISA-hash #-I./ext/TAL/src/dynamic-programming #INCLUDES= -I./ext/TAL_offline/src/LISA-hash #-I./ext/TAL/src/dynamic-programming
INCLUDES= -I./ext/TAL/src/LISA-hash -I./ext/TAL/src/dynamic-programming
OBJS= kthread.o kalloc.o misc.o bseq.o sketch.o sdust.o options.o index.o \ OBJS= kthread.o kalloc.o misc.o bseq.o sketch.o sdust.o options.o index.o \
lchain.o align.o hit.o seed.o map.o format.o pe.o esterr.o splitidx.o \ lchain.o align.o hit.o seed.o map.o format.o pe.o esterr.o splitidx.o \
ksw2_ll_sse.o ksw2_ll_sse.o
ext/TAL
Submodule
+1
Submodule ext/TAL added at 2a97815a5f
lchain.c
+2 -1
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@@ -6,7 +6,8 @@
#include "kalloc.h" #include "kalloc.h"
#include "krmq.h" #include "krmq.h"
//#include "simd_chain.h" //#include "simd_chain.h"
#include "parallel_chaining_32_bit.h" //#include "parallel_chaining_32_bit.h"
#include "parallel_chaining_v2_22.h"
extern uint64_t dp_time, rmq_time, rmq_t1, rmq_t2, rmq_t3, rmq_t4; extern uint64_t dp_time, rmq_time, rmq_t1, rmq_t2, rmq_t3, rmq_t4;