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implemented SSE version; NOT working yet

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need to take a rest. Debugging is going to be tough.
This commit is contained in:
Heng Li
2017-06-16 21:35:51 -04:00
parent 359b829350
commit fe8327500f
2 changed files with 157 additions and 7 deletions
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ksw2.h
+3 -3
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@@ -25,9 +25,9 @@ extern "C" {
*
* @return score of the alignment
*/
int ksw_global(void *km, int qlen, const uint8_t *query, int tlen, const uint8_t *target, int m, const int8_t *mat, int gapo, int gape, int w, int *n_cigar, uint32_t **cigar);
int ksw_global2(void *km, int qlen, const uint8_t *query, int tlen, const uint8_t *target, int m, const int8_t *mat, int8_t q, int8_t e, int w, int *n_cigar_, uint32_t **cigar_);
int ksw_global(void *km, int qlen, const uint8_t *query, int tlen, const uint8_t *target, int8_t m, const int8_t *mat, int8_t gapo, int8_t gape, int w, int *n_cigar_, uint32_t **cigar_);
int ksw_global2(void *km, int qlen, const uint8_t *query, int tlen, const uint8_t *target, int8_t m, const int8_t *mat, int8_t gapo, int8_t gape, int w, int *n_cigar_, uint32_t **cigar_);
int ksw_global2_sse(void *km, int qlen, const uint8_t *query, int tlen, const uint8_t *target, int8_t m, const int8_t *mat, int8_t gapo, int8_t gape, int w, int *n_cigar_, uint32_t **cigar_);
void ksw_gen_simple_mat(int m, int8_t *mat, int8_t a, int8_t b);