fork/minimap2
1
0
Fork 0
mirror of https://github.com/lh3/minimap2.git synced 2026-10-03 22:38:11 +08:00
Code Issues Packages Projects Releases Wiki Activity

r216: a bit cleanup; identical output to r215

Browse Source
This commit is contained in:
Heng Li
2017-07-28 11:54:18 -04:00
parent fc965805f7
commit 254280b8af
5 changed files with 14 additions and 7 deletions
Download Patch File Download Diff File Expand all files Collapse all files
map.c
+4 -1
View File
@@ -209,8 +209,10 @@ mm_reg1_t *mm_map_frag(const mm_mapopt_t *opt, const mm_idx_t *mi, mm_tbuf_t *b,
mm128_t *p = &b->mini.a[i + m_st];
mm_match_t *q = &m[i];
const uint64_t *r = q->x.cr;
int k, q_span = p->x & 0xff;
int k, q_span = p->x & 0xff, is_tandem = 0;
if (q->n >= opt->mid_occ) continue;
if (i > 0 && p->x>>8 == b->mini.a[m_st + i - 1].x>>8) is_tandem = 1;
if (i < n - 1 && p->x>>8 == b->mini.a[m_st + i + 1].x>>8) is_tandem = 1;
for (k = 0; k < q->n; ++k) {
const char *tname = mi->seq[r[k]>>32].name;
int32_t rpos = (uint32_t)r[k] >> 1;
@@ -227,6 +229,7 @@ mm_reg1_t *mm_map_frag(const mm_mapopt_t *opt, const mm_idx_t *mi, mm_tbuf_t *b,
p->x = 1ULL<<63 | (r[k]&0xffffffff00000000ULL) | (uint32_t)r[k]>>1;
p->y = (uint64_t)q_span << 32 | (qlen - ((q->qpos>>1) + 1 - q_span) - 1);
}
if (is_tandem) p->y |= MM_SEED_TANDEM;
}
}
n_a = j;