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#ifndef __TERCPPALIGNMENTSTRUCT_H__
#define __TERCPPALIGNMENTSTRUCT_H__
#include <vector>
#include <stdio.h>
#include <string>
#include <sstream>
#include "tools.h"
using namespace std;
using namespace Tools;
namespace TERCpp
{
class alignmentStruct
{
private:
public:
// alignmentStruct();
// alignmentStruct (int _start, int _end, int _moveto, int _newloc);
// alignmentStruct (int _start, int _end, int _moveto, int _newloc, vector<string> _shifted);
// string toString();
// int distance() ;
// bool leftShift();
// int size();
// alignmentStruct operator=(alignmentStruct t);
// string vectorToString(vector<string> vec);
// int start;
// int end;
// int moveto;
// int newloc;
vector<string> nwords; // The words we shifted
vector<char> alignment ; // for pra_more output
vector<vecInt> aftershift; // for pra_more output
// This is used to store the cost of a shift, so we don't have to
// calculate it multiple times.
double cost;
string toString();
};
}
#endif // __TERCPPALIGNMENTSTRUCT_H__
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