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disable debug

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chhylp123
2020-03-23 00:25:20 -04:00
parent ee2573a05c
commit 3c1d3cf6a1
2 changed files with 28 additions and 17 deletions
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CommandLines.cpp
+6 -1
View File
@@ -45,7 +45,7 @@ void Print_H(hifiasm_opt_t* asm_opt)
fprintf(stderr, " Trio-partition:\n");
fprintf(stderr, " -P FILE paternal trio index generated by \"yak count\" [NULL]\n");
fprintf(stderr, " -M FILE Maternal trio index generated by \"yak count\" [NULL]\n");
fprintf(stderr, " -M FILE maternal trio index generated by \"yak count\" [NULL]\n");
fprintf(stderr, " -c INT lower bound of the binned k-mer's frequency [%d]\n", asm_opt->min_cnt);
fprintf(stderr, " -d INT upper bound of the binned k-mer's frequency [%d]\n", asm_opt->mid_cnt);
@@ -253,6 +253,11 @@ int check_option(hifiasm_opt_t* asm_opt)
// fprintf(stderr, "size of popped small bubbles: %lld\n", asm_opt->small_pop_bubble_size);
// fprintf(stderr, "size of popped large bubbles: %lld\n", asm_opt->large_pop_bubble_size);
// fprintf(stderr, "small removed unitig threshold: %d\n", asm_opt->max_short_tip);
// fprintf(stderr, "small removed unitig threshold: %d\n", asm_opt->max_short_tip);
// fprintf(stderr, "pat_index: %s\n", asm_opt->pat_index);
// fprintf(stderr, "mat_index: %s\n", asm_opt->mat_index);
// fprintf(stderr, "min_cnt: %d\n", asm_opt->min_cnt);
// fprintf(stderr, "mid_cnt: %d\n", asm_opt->mid_cnt);
return 1;
}
Overlaps.cpp
+22 -16
View File
@@ -25060,11 +25060,14 @@ ma_sub_t* coverage_cut, int debug_g)
asg_arc_del_simple_circle_untig(sources, coverage_cut, sg, 100, 0);
/*******************************for debug***************************************/
write_debug_graph(sg, sources, coverage_cut, output_file_name, n_read, reverse_sources, ruIndex);
debug_gfa:;
/*******************************for debug***************************************/
if(VERBOSE_GFA >= 1)
{
/*******************************for debug***************************************/
write_debug_graph(sg, sources, coverage_cut, output_file_name, n_read, reverse_sources, ruIndex);
debug_gfa:;
/*******************************for debug***************************************/
}
/**
debug_ma_hit_t(sources, coverage_cut, n_read, max_hang_length,
mini_overlap_length);
@@ -25137,20 +25140,23 @@ long long bubble_dist, int read_graph, int write)
///actually min_thres = asm_opt.max_short_tip + 1 there are asm_opt.max_short_tip reads
min_thres = asm_opt.max_short_tip + 1;
if(load_debug_graph(&sg, &sources, &coverage_cut, output_file_name, &reverse_sources, &ruIndex))
if(VERBOSE_GFA >= 1)
{
fprintf(stderr, "debug gfa has been loaded\n");
clean_graph(min_dp, sources, reverse_sources, n_read, readLen, mini_overlap_length,
max_hang_length, clean_round, gap_fuzz, min_ovlp_drop_ratio, max_ovlp_drop_ratio,
output_file_name, bubble_dist, read_graph, &ruIndex, sg, coverage_cut, 1);
asg_destroy(sg);
free(coverage_cut);
destory_R_to_U(&ruIndex);
return;
if(load_debug_graph(&sg, &sources, &coverage_cut, output_file_name, &reverse_sources, &ruIndex))
{
fprintf(stderr, "debug gfa has been loaded\n");
clean_graph(min_dp, sources, reverse_sources, n_read, readLen, mini_overlap_length,
max_hang_length, clean_round, gap_fuzz, min_ovlp_drop_ratio, max_ovlp_drop_ratio,
output_file_name, bubble_dist, read_graph, &ruIndex, sg, coverage_cut, 1);
asg_destroy(sg);
free(coverage_cut);
destory_R_to_U(&ruIndex);
return;
}
}
if (asm_opt.write_index_to_disk && write)
{