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Heng Li
2017-09-20 11:47:46 -04:00
parent 645db3350e
commit 03d6894517
3 changed files with 20 additions and 2 deletions
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hit.c
+13 -1
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@@ -293,7 +293,19 @@ void mm_join_long(void *km, const mm_mapopt_t *opt, int qlen, int *n_regs_, mm_r
mm_sync_regs(km, *n_regs_, regs);
}
}
/*
void mm_sep_seg(void *km, int n_segs, int qlen_sum, int n_regs0, mm_reg1_t *regs0, mm128_t *a, mm_segreg_t *seg)
{ // TODO: this implement is inefficient given a large n_segs
int s, i, j;
memset(seg, 0, n_segs * sizeof(mm_segreg_t));
for (i = 0; i < n_regs0; ++i) {
mm_reg1_t *r = &regs0[i];
for (j = 0; j < r->cnt; ++j) {
++seg[(a[r->as + j].y&MM_SEED_SEG_MASK)>>MM_SEED_SEG_SHIFT].n_a;
}
}
}
*/
void mm_set_mapq(int n_regs, mm_reg1_t *regs, int min_chain_sc, int match_sc, int rep_len)
{
static const float q_coef = 40.0f;