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/**
* Author: Mark Larkin
*
* Copyright (c) 2007 Des Higgins, Julie Thompson and Toby Gibson.
*/
/**
* Changes:
* mark May 8th 2007: removed makeEmpty(Node* t function), changed makeEmpty(). I also
* made changes to any functions that accessed Node's data members
*/
#ifndef ROOTEDGUIDETREE_H
#define ROOTEDGUIDETREE_H
#include "Node.h"
#include <fstream>
#include "../../alignment/Alignment.h"
namespace clustalw
{
using namespace std;
class RootedGuideTree
{
public:
RootedGuideTree();
RootedGuideTree(Node* root);
~RootedGuideTree();
void setRoot(Node* r);
void makeEmpty();
void calcSeqWeights(int firstSeq, int lastSeq, vector<int>* seqWeights);
Node* getRoot(){return root;}
private:
void orderNodes();
int calcOrderNode(Node* node);
void calcWeights(vector<int>* seqWeights);
void doWeightCalc(float weightSoFar, vector<float>* seqWeights, Node* t);
Node* root;
};
}
#endif
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