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#ifndef DISTANCEDB_HPP
#define DISTANCEDB_HPP
/*
* distancedb.hpp
*
*
* Created by westcott on 1/27/10.
* Copyright 2010 Schloss Lab. All rights reserved.
*
*/
#include "mothur.h"
#include "calculator.h"
class DistanceDB : public SearchDatabase {
public:
DistanceDB();
~DistanceDB() { delete distCalculator; }
void generateDB(){}; //doesn't generate a search db
void addSequence(Sequence);
string getName(int i) { return data[i].getName(); }
vector<int> findClosestSequences(Sequence*, int, vector<float>&) const; // returns indexes of n closest sequences to query
private:
vector<Sequence> data;
DistCalc* distCalculator;
int templateSeqsLength;
bool templateAligned;
bool isAligned(string);
};
#endif
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