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Heng Li
2017-09-20 14:35:46 -04:00
parent 5b39a1b34b
commit 9943e5fdd0
3 changed files with 118 additions and 51 deletions
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mmpriv.h
+6 -3
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@@ -40,10 +40,10 @@ typedef struct __kstring_t {
#endif
typedef struct {
int n_regs, n_a;
mm_reg1_t *regs;
int n_u, n_a;
uint64_t *u;
mm128_t *a;
} mm_segreg_t;
} mm_seg_t;
double cputime(void);
double realtime(void);
@@ -77,6 +77,9 @@ void mm_join_long(void *km, const mm_mapopt_t *opt, int qlen, int *n_regs, mm_re
void mm_hit_sort_by_dp(void *km, int *n_regs, mm_reg1_t *r);
void mm_set_mapq(int n_regs, mm_reg1_t *regs, int min_chain_sc, int match_sc, int rep_len);
mm_seg_t *mm_seg_gen(void *km, int n_segs, const int *qlens, int n_regs0, const mm_reg1_t *regs0, int *n_regs, mm_reg1_t **regs, const mm128_t *a);
void mm_seg_free(void *km, int n_segs, mm_seg_t *segs);
#ifdef __cplusplus
}
#endif