1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
|
//
// optimatrix.h
// Mothur
//
// Created by Sarah Westcott on 4/20/16.
// Copyright (c) 2016 Schloss Lab. All rights reserved.
//
#ifndef __Mothur__optimatrix__
#define __Mothur__optimatrix__
#include "optidata.hpp"
/*
#ifdef UNIT_TEST
OptiMatrix() : OptiData(0.03) {};
#endif
*/
class OptiMatrix : public OptiData {
public:
OptiMatrix(vector< set<long long> >, vector<string>, vector<string>, double); //closeness, namemap, singleton, cutoff
OptiMatrix(string, string, string, string, double, bool); //distfile, dupsFile, dupsFormat, distFormat, cutoff, sim
~OptiMatrix(){}
protected:
string distFile, namefile, countfile, format, distFormat;
bool sim;
int readPhylip();
int readColumn();
};
#endif /* defined(__Mothur__optimatrix__) */
|
