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correct gchains

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chhylp123
2021-10-14 15:33:16 -04:00
parent 908b4f3786
commit 26aacdcc2c
3 changed files with 342 additions and 36 deletions
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Overlaps.cpp
+8 -2
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@@ -13289,6 +13289,12 @@ ma_hit_t_alloc* sources, R_to_U* ruIndex)
FILE* output_file = fopen(gfa_name, "w");
ma_ug_print(ug, sg, coverage_cut, sources, ruIndex, "utg", output_file);
fclose(output_file);
sprintf(gfa_name, "%s.after.clean_d_utg.noseq.gfa", output_file_name);
output_file = fopen(gfa_name, "w");
ma_ug_print_simple(ug, sg, coverage_cut, sources, ruIndex, "utg", output_file);
fclose(output_file);
free(gfa_name);
}
@@ -13325,8 +13331,8 @@ long long gap_fuzz, bub_label_t* b_mask_t)
new_rtg_edges.a.n = 0;
ma_ug_seq(ug, sg, coverage_cut, sources, &new_rtg_edges, max_hang, min_ovlp, &d_edges, 1);///polish
print_debug_gfa(ug, sg, coverage_cut, output_file_name, sources, ruIndex);
ul_resolve(ug, asm_opt.polyploidy);
// print_debug_gfa(ug, sg, coverage_cut, output_file_name, sources, ruIndex);
ul_resolve(ug, sg, &opt, asm_opt.polyploidy);
/**
hap_cov_t *cov = NULL;
trans_chain* t_ch = NULL;