getgroupcommand.h

   1 #ifndef GETGROUPCOMMAND_H
   2 #define GETGROUPCOMMAND_H
   3
   4 /*
   5  *  getgroupcommand.h
   6  *  Mothur
   7  *
   8  *  Created by Thomas Ryabin on 2/2/09.
   9  *  Copyright 2009 Schloss Lab UMASS Amherst. All rights reserved.
  10  *
  11  */
  12
  13 #include "command.hpp"
  14 #include "globaldata.hpp"
  15
  16 class GetgroupCommand : public Command {
  17 public:
  18         GetgroupCommand(string);
  19         GetgroupCommand();
  20         ~GetgroupCommand();
  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         GlobalData* globaldata;
  30         GroupMap* groupMap;
  31         string outputFile, sharedfile;
  32         vector<string> outputNames;
  33         map<string, vector<string> > outputTypes;
  34         ofstream out;
  35         ifstream in;
  36         bool abort;
  37
  38 };
  39
  40 #endif