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block phasing

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chhylp123
2021-04-21 10:58:58 -04:00
parent 475ebb8075
commit 278efaa876
4 changed files with 616 additions and 67 deletions
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hic.cpp
+4 -4
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@@ -13885,7 +13885,7 @@ kv_u_trans_t *ta, trans_idx* dis)
if(IF_HOM(end, *bub)) continue;
t_d = get_hic_distance(&(hits->a.a[k]), link, idx);
// if(t_d == (uint64_t)-1) continue;
if(t_d == (uint64_t)-1) continue;
get_u_trans_spec(ta, beg, end, &e1, NULL);
get_u_trans_spec(ta, end, beg, &e2, NULL);
@@ -13955,7 +13955,7 @@ pe_hit *hits, uint32_t occ, uint32_t qid, uint32_t qs, uint32_t qe, uint32_t tid
if(!(ts <= e_beg && te >= e_end)) continue;
t_d = get_hic_distance(&hits[k], link, idx);
// if(t_d == (uint64_t)-1) continue;
if(t_d == (uint64_t)-1) continue;
weight = 1;
if(dis) weight = get_trans_weight_advance(idx, t_d, dis);
@@ -13975,7 +13975,7 @@ pe_hit *hits, uint32_t occ, uint32_t qid, uint32_t qs, uint32_t qe, uint32_t tid
if(!(ts <= e_beg && te >= e_end)) continue;
t_d = get_hic_distance(&hits[k], link, idx);
// if(t_d == (uint64_t)-1) continue;
if(t_d == (uint64_t)-1) continue;
weight = 1;
if(dis) weight = get_trans_weight_advance(idx, t_d, dis);
@@ -14253,7 +14253,7 @@ int hic_short_align(const enzyme *fn1, const enzyme *fn2, ha_ug_index* idx)
update_trans_g(idx, &k_trans, &bub);
/*******************************for debug************************************/
mc_solve(NULL, NULL, &k_trans, idx->ug, idx->read_g, 0.8, R_INF.trio_flag,
(bub.round_id == 0? 1 : 0), s->s, 0, /**&bub**/NULL);
(bub.round_id == 0? 1 : 0), s->s, 0, /**&bub**/NULL, NULL);
/*******************************for debug************************************/
label_unitigs_sm(s->s, idx->ug);
/**