systemcommand.h

   1 #ifndef SYSTEMCOMMAND_H
   2 #define SYSTEMCOMMAND_H
   3
   4 /*
   5  *  systemcommand.h
   6  *  Mothur
   7  *
   8  *  Created by Sarah Westcott on 7/8/09.
   9  *  Copyright 2009 Schloss Lab UMASS Amherst. All rights reserved.
  10  *
  11  */
  12
  13 #include "command.hpp"
  14
  15
  16 class SystemCommand : public Command {
  17
  18         public:
  19
  20                 SystemCommand(string);
  21                 SystemCommand() { setParameters(); abort = true; calledHelp = true; }
  22                 ~SystemCommand(){}
  23
  24                 vector<string> setParameters();
  25                 string getCommandName()                 { return "system";              }
  26                 string getCommandCategory()             { return "General";             }
  27         string getHelpString();
  28         string getOutputPattern(string){ return ""; }
  29                 string getCitation() { return "http://www.mothur.org/wiki/System"; }
  30                 string getDescription()         { return "execute system commands from within mothur"; }
  31
  32                 int execute();
  33                 void help() { m->mothurOut(getHelpString()); }
  34
  35         private:
  36                 string command;
  37                 bool abort;
  38                 vector<string> outputNames;
  39
  40
  41 };
  42
  43 #endif
  44