mantelcommand.h

   1 #ifndef MANTELCOMMAND_H
   2 #define MANTELCOMMAND_H
   3
   4 /*
   5  *  mantelcommand.h
   6  *  mothur
   7  *
   8  *  Created by westcott on 2/9/11.
   9  *  Copyright 2011 Schloss Lab. All rights reserved.
  10  *
  11  */
  12
  13 #include "command.hpp"
  14 #include "linearalgebra.h"
  15
  16 class MantelCommand : public Command {
  17 public:
  18         MantelCommand(string);
  19         MantelCommand();
  20         ~MantelCommand();
  21         vector<string> getRequiredParameters();
  22         vector<string> getValidParameters();
  23         vector<string> getRequiredFiles();
  24         map<string, vector<string> > getOutputFiles() { return outputTypes; }
  25         int execute();
  26         void help();
  27
  28 private:
  29
  30         string phylipfile1, phylipfile2, outputDir, method;
  31         bool abort;
  32         int iters;
  33
  34         vector<string> outputNames;
  35         map<string, vector<string> > outputTypes;
  36 };
  37
  38
  39 #endif
  40
  41
  42