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improve speed

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This commit is contained in:
Haoyu Cheng
2019-08-26 02:22:20 -04:00
parent 6802d873cf
commit 3c0c201cdf
12 changed files with 249 additions and 39 deletions
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POA.h
+17 -4
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@@ -203,9 +203,10 @@ inline void add_deletionEdge_weight(Graph* g, long long alignNodeID, long long d
add_single_deletionEdge_weight(g, alignNodeID, alignNodeID + 2, 0);
add_single_deletionEdge_weight(g, alignNodeID + 1, alignNodeID + 2, 0);
}
else
else if (deletion_length > 2)
{
fprintf(stderr, "too long deletion!\n");
///fprintf(stderr, "too long deletion!\n");
add_single_deletionEdge_weight(g, alignNodeID, alignNodeID + deletion_length, 0);
}
}
@@ -385,9 +386,21 @@ inline void add_insertionEdge_weight(Graph* g, long long alignNodeID, char* inse
/**********************两个字符******************* */
}
else
else if (insert_length > 2)
{
fprintf(stderr, "too long insertion\n");
////fprintf(stderr, "too long insertion\n");
/*************************大于2个字符************************** */
edgeID = get_insertion_Edges(g, edge, insert_length, insert);
if (edgeID != -1)
{
///这条路均只有一个出度
edge->list[edgeID].weight++;
}
else
{
create_insertion_Edges(g, alignNodeID, insert_length, insert);
}
}