X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=command.hpp;fp=command.hpp;h=22f118164eb04e7d22c0438e3e42c56b79ed0f3d;hb=0caf3fbabaa3ece404f8ce77f4c883dc5b1bf1dc;hp=0000000000000000000000000000000000000000;hpb=1b73ff67c83892a025e597dabd9df6fe7b58206a;p=mothur.git

diff --git a/command.hpp b/command.hpp
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+++ b/command.hpp
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+#ifndef COMMAND_HPP
+#define COMMAND_HPP
+//test2
+/*
+ *  command.h
+ *  
+ *
+ *  Created by Pat Schloss on 10/23/08.
+ *  Copyright 2008 Patrick D. Schloss. All rights reserved.
+ *
+ */
+
+/*This class is a parent to all the command classes.  */
+
+
+#include "mothur.h"
+#include "optionparser.h"
+#include "validparameter.h"
+#include "mothurout.h"
+#include "commandparameter.h"
+
+
+class Command {
+	
+	public:
+		Command() {  m = MothurOut::getInstance();   } 
+		
+		//needed by gui
+		virtual string getCommandName() = 0;
+		virtual string getCommandCategory() = 0;
+		virtual string getHelpString() = 0;
+		virtual string getCitation() = 0;
+		virtual string getDescription() = 0;
+		
+		virtual map<string, vector<string> > getOutputFiles() { return outputTypes; }
+		virtual vector<string> setParameters() = 0; //to fill parameters
+		virtual vector<CommandParameter> getParameters() { return parameters; }
+	
+		virtual int execute() = 0;
+		virtual void help() = 0;
+		void citation() { m->mothurOutEndLine(); m->mothurOut(getCitation()); m->mothurOutEndLine(); }
+		virtual ~Command() { }
+	
+	protected:
+		MothurOut* m;
+		bool calledHelp;
+			
+		map<string, vector<string> > outputTypes;
+		vector<CommandParameter> parameters;
+	
+		map<string, vector<string> >::iterator itTypes;
+};
+
+#endif