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This commit is contained in:
Haoyu Cheng
2019-07-01 09:08:25 -04:00
parent 30161f1544
commit b553f3ac5e
17 changed files with 732 additions and 18 deletions
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Hash_Table.cpp
+37 -12
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@@ -256,6 +256,7 @@ void append_overlap_region_alloc(overlap_region_alloc* list, overlap_region* tmp
if(tmp->x_pos_s <= tmp->y_pos_s)
{
tmp->y_pos_s = tmp->y_pos_s - tmp->x_pos_s;
@@ -283,18 +284,36 @@ void append_overlap_region_alloc(overlap_region_alloc* list, overlap_region* tmp
list->list[list->length].x_id = tmp->x_id;
list->list[list->length].x_pos_e = tmp->x_pos_e;
list->list[list->length].x_pos_s = tmp->x_pos_s;
list->list[list->length].x_pos_strand = tmp->x_pos_strand;
list->list[list->length].y_id = tmp->y_id;
list->list[list->length].y_pos_e = tmp->y_pos_e;
list->list[list->length].y_pos_s = tmp->y_pos_s;
list->list[list->length].y_pos_strand = tmp->y_pos_strand;
///y的区间方向永远是0
///x有可能是1
///如果x是1，那我们把它逆过来
if (tmp->x_pos_strand == 1)
{
list->list[list->length].x_id = tmp->x_id;
list->list[list->length].x_pos_e = Get_READ_LENGTH((*R_INF), tmp->x_id) - tmp->x_pos_s - 1;
list->list[list->length].x_pos_s = Get_READ_LENGTH((*R_INF), tmp->x_id) - tmp->x_pos_e - 1;
list->list[list->length].x_pos_strand = 0;
list->list[list->length].y_id = tmp->y_id;
list->list[list->length].y_pos_e = Get_READ_LENGTH((*R_INF), tmp->y_id) - tmp->y_pos_s - 1;
list->list[list->length].y_pos_s = Get_READ_LENGTH((*R_INF), tmp->y_id) - tmp->y_pos_e - 1;
list->list[list->length].y_pos_strand = 1;
}
else
{
list->list[list->length].x_id = tmp->x_id;
list->list[list->length].x_pos_e = tmp->x_pos_e;
list->list[list->length].x_pos_s = tmp->x_pos_s;
list->list[list->length].x_pos_strand = tmp->x_pos_strand;
list->list[list->length].y_id = tmp->y_id;
list->list[list->length].y_pos_e = tmp->y_pos_e;
list->list[list->length].y_pos_s = tmp->y_pos_s;
list->list[list->length].y_pos_strand = tmp->y_pos_strand;
}
list->list[list->length].shared_seed = tmp->shared_seed;
@@ -536,7 +555,13 @@ uint64_t readID, uint64_t readLength, All_reads* R_INF)
break;
}
append_overlap_region_alloc(overlap_list, &tmp_region, R_INF);
///自己和自己重叠的要排除
if (tmp_region.x_id != tmp_region.y_id)
{
append_overlap_region_alloc(overlap_list, &tmp_region, R_INF);
}
}