command.hpp

   1 #ifndef COMMAND_HPP
   2 #define COMMAND_HPP
   3
   4 /*
   5  *  command.h
   6  *
   7  *
   8  *  Created by Pat Schloss on 10/23/08.
   9  *  Copyright 2008 Patrick D. Schloss. All rights reserved.
  10  *
  11  */
  12
  13 /*This class is a parent to all the command classes.  */
  14
  15
  16 #include "mothur.h"
  17 #include "optionparser.h"
  18 #include "validparameter.h"
  19 #include "mothurout.h"
  20 #include "commandparameter.h"
  21
  22
  23 class Command {
  24
  25         public:
  26                 Command() {  m = MothurOut::getInstance();   }
  27
  28                 //needed by gui
  29                 virtual string getCommandName() = 0;
  30                 virtual string getCommandCategory() = 0;
  31                 virtual string getHelpString() = 0;
  32                 virtual string getCitation() = 0;
  33
  34                 virtual map<string, vector<string> > getOutputFiles() { return outputTypes; }
  35                 virtual vector<string> setParameters() = 0; //to fill parameters
  36                 virtual vector<CommandParameter> getParameters() { return parameters; }
  37
  38                 virtual int execute() = 0;
  39                 virtual void help() = 0;
  40                 void citation() { m->mothurOut(getCitation()); }
  41                 virtual ~Command() { }
  42
  43         protected:
  44                 MothurOut* m;
  45                 bool calledHelp;
  46
  47                 map<string, vector<string> > outputTypes;
  48                 vector<CommandParameter> parameters;
  49
  50                 map<string, vector<string> >::iterator itTypes;
  51 };
  52
  53 #endif