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fix bubble on-the-fly

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chhylp123
2023-04-13 10:16:14 -04:00
parent 7e855ba5e2
commit 84e642d20d
6 changed files with 1012 additions and 110 deletions
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gfa_ut.cpp
+4 -1
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@@ -15686,6 +15686,9 @@ void u2g_hybrid_clean(ul_resolve_t *uidx, ulg_opt_t *ulopt, usg_t *ng, asg64_v *
// prt_usg_t(uidx, ng, sb);
// usg_arc_cut_length(ng, b, ub, mm_tip>>1, drop, ulopt->is_trio, 1, NULL);
usg_bub_clean(ng, &bb, b, ub, mm_tip>>1, drop, 1, bs, f);
// fprintf(stderr, "-1bub-[M::%s::] i::%ld, drop::%f\n", __func__, i, drop);
// sprintf(sb, "ng_ss::%ld_i::%ld_drop::%f_b::bub", ss, i, drop);
// prt_usg_t(uidx, ng, sb);
usg_arc_cut_srt_length(ng, b, ub, mm_tip>>1, drop, ulopt->is_trio, 1, NULL, bs);
// fprintf(stderr, "-1-[M::%s::] i::%ld, drop::%f\n", __func__, i, drop);
// sprintf(sb, "ng_ss::%ld_i::%ld_drop::%f_b", ss, i, drop);
@@ -16580,7 +16583,7 @@ ma_ug_t* output_trio_unitig_graph_ul(ug_opt_t *uopt, ul_resolve_t *uidx, char* o
adjust_utg_by_trio(&ug, uidx->sg, flag, TRIO_THRES, uopt->sources, uopt->reverse_sources,
uopt->coverage_cut, uopt->tipsLen, uopt->tip_drop_ratio, uopt->stops_threshold, uopt->ruIndex,
uopt->chimeric_rate, uopt->drop_ratio, uopt->max_hang, uopt->min_ovlp, &ne, uopt->b_mask_t);
uopt->chimeric_rate, uopt->drop_ratio, uopt->max_hang, uopt->min_ovlp, uopt->gap_fuzz, &ne, uopt->b_mask_t);
// if(asm_opt.b_low_cov > 0) {
// break_ug_contig(&ug, uidx->sg, &R_INF, uopt->coverage_cut, uopt->sources, uopt->ruIndex, &ne,