unweighted.h

   1 #ifndef UNWEIGHTED_H
   2 #define UNWEIGHTED_H
   3
   4
   5 /*
   6  *  unweighted.h
   7  *  Mothur
   8  *
   9  *  Created by Sarah Westcott on 2/9/09.
  10  *  Copyright 2009 Schloss Lab UMASS Amherst. All rights reserved.
  11  *
  12  */
  13
  14 #include "treecalculator.h"
  15 #include "counttable.h"
  16
  17 /***********************************************************************/
  18
  19 class Unweighted : public TreeCalculator  {
  20
  21         public:
  22         Unweighted(bool r) : includeRoot(r) {};
  23                 ~Unweighted() {};
  24                 EstOutput getValues(Tree*, int, string);
  25                 EstOutput getValues(Tree*, string, string, int, string);
  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                 int processors;
  37                 string outputDir;
  38                 map< vector<string>, set<int> > rootForGrouping;  //maps a grouping combo to the roots for that combo
  39                 bool includeRoot;
  40
  41                 EstOutput driver(Tree*, vector< vector<string> >, int, int, CountTable*);
  42                 EstOutput createProcesses(Tree*, vector< vector<string> >, CountTable*);
  43                 EstOutput driver(Tree*, vector< vector<string> >, int, int, bool, CountTable*);
  44                 EstOutput createProcesses(Tree*, vector< vector<string> >, bool, CountTable*);
  45                 int getRoot(Tree*, int, vector<string>);
  46 };
  47
  48 /***********************************************************************/
  49
  50 #endif