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This commit is contained in:
Heng Li
2017-06-29 12:58:52 -04:00
parent c8d122bcdb
commit d274e1b743
7 changed files with 71 additions and 13 deletions
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mmpriv.h
+4 -5
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@@ -39,18 +39,17 @@ mm_reg1_t *mm_align_skeleton(void *km, const mm_mapopt_t *opt, const mm_idx_t *m
static inline void mm_reg_set_coor(mm_reg1_t *r, int32_t qlen, const mm128_t *a)
{
int32_t k = r->as;
int32_t k = r->as, q_span = (int32_t)(a[k].y>>32&0xff);
r->rev = a[k].x>>63;
r->rid = a[k].x<<1>>33;
assert(r->rid != 0x7fffffff);
r->rs = (int32_t)a[k].x + 1 > (int32_t)(a[k].y>>32)? (int32_t)a[k].x + 1 - (int32_t)(a[k].y>>32) : 0;
r->rs = (int32_t)a[k].x + 1 > q_span? (int32_t)a[k].x + 1 - q_span : 0; // NB: target span may be shorter, so this test is necessary
r->re = (int32_t)a[k + r->cnt - 1].x + 1;
if (!r->rev) {
r->qs = (int32_t)a[k].y + 1 - (int32_t)(a[k].y>>32);
r->qs = (int32_t)a[k].y + 1 - q_span;
r->qe = (int32_t)a[k + r->cnt - 1].y + 1;
} else {
r->qs = qlen - ((int32_t)a[k + r->cnt - 1].y + 1);
r->qe = qlen - ((int32_t)a[k].y + 1 - (int32_t)(a[k].y>>32));
r->qe = qlen - ((int32_t)a[k].y + 1 - q_span);
}
}