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r148: revamped regs handling after cigar

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Heng Li
2017-07-03 10:44:26 -04:00
parent 696ebce66e
commit 2e4fd9f1d0
6 changed files with 58 additions and 92 deletions
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align.c
+2 -5
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@@ -239,11 +239,8 @@ static void mm_align1(void *km, const mm_mapopt_t *opt, const mm_idx_t *mi, int
r->p->dp_score += ez->max;
re1 = rs + (ez->max_t + 1);
qe1 = qs + (ez->max_q + 1);
if (r->cnt - (j + 1) >= opt->min_cnt) {
if (r->cnt - (j + 1) >= opt->min_cnt)
mm_split_reg(r, r2, j + 1, qlen, a);
if (j + 1 < opt->min_cnt)
r2->id = r->id, r2->parent = r2->id, r->id = -1, r->parent = MM_PARENT_TMP_PRI;
}
break;
} else r->p->dp_score += ez->score;
rs = re, qs = qe;
@@ -305,9 +302,9 @@ mm_reg1_t *mm_align_skeleton(void *km, const mm_mapopt_t *opt, const mm_idx_t *m
}
}
*n_regs_ = n_regs;
mm_sync_regs(km, n_regs, regs);
kfree(km, qseq0[0]); kfree(km, qseq0[1]);
kfree(km, ez.cigar);
mm_filter_regs(km, opt, n_regs_, regs);
mm_hit_sort_by_dp(km, n_regs_, regs);
return regs;
}