parsimony.h

   1 #ifndef PARSIMONY_H
   2 #define PARSIMONY_H
   3
   4
   5 /*
   6  *  parsimony.h
   7  *  Mothur
   8  *
   9  *  Created by Sarah Westcott on 1/26/09.
  10  *  Copyright 2009 Schloss Lab UMASS Amherst. All rights reserved.
  11  *
  12  */
  13
  14 #include "treecalculator.h"
  15 #include "treemap.h"
  16
  17 /***********************************************************************/
  18
  19 class Parsimony : public TreeCalculator  {
  20
  21         public:
  22                 Parsimony(TreeMap* t) : tmap(t) {};
  23                 ~Parsimony() {};
  24                 EstOutput getValues(Tree*, int, string);
  25                 //EstOutput getValues(Tree*, string, string) { return data; }
  26
  27         private:
  28                 struct linePair {
  29                         int start;
  30                         int num;
  31                         linePair(int i, int j) : start(i), num(j) {}
  32                 };
  33                 vector<linePair> lines;
  34
  35                 EstOutput data;
  36                 TreeMap* tmap;
  37                 int processors;
  38                 string outputDir;
  39
  40                 EstOutput driver(Tree*, vector< vector<string> >, int, int);
  41                 EstOutput createProcesses(Tree*, vector< vector<string> >);
  42 };
  43
  44 /***********************************************************************/
  45
  46 #endif