readmatrix.hpp

   1 #ifndef READMATRIX_HPP
   2 #define READMATRIX_HPP
   3
   4 /*
   5  *  readmatrix.hpp
   6  *
   7  *
   8  *  Created by Pat Schloss on 8/13/08.
   9  *  Copyright 2008 Patrick D. Schloss. All rights reserved.
  10  *
  11  */
  12
  13 #include "mothur.h"
  14 #include "listvector.hpp"
  15 #include "nameassignment.hpp"
  16 #include "counttable.h"
  17 #include "sparsedistancematrix.h"
  18
  19
  20 class ReadMatrix {
  21
  22 public:
  23         ReadMatrix(){ DMatrix = new SparseDistanceMatrix(); m = MothurOut::getInstance();  }
  24         virtual ~ReadMatrix() {}
  25         virtual int read(NameAssignment*){ return 1; }
  26     virtual int read(CountTable*){ return 1; }
  27
  28         void setCutoff(float c)                 {       cutoff = c;             }
  29     SparseDistanceMatrix* getDMatrix()          {       return DMatrix;         }
  30         ListVector* getListVector()             {       return list;    }
  31
  32         int successOpen;
  33
  34 protected:
  35     SparseDistanceMatrix* DMatrix;
  36         ListVector* list;
  37         float cutoff;
  38         MothurOut* m;
  39         bool sim;
  40 };
  41
  42
  43
  44 #endif