X-Git-Url: https://git.donarmstrong.com/?p=mothur.git;a=blobdiff_plain;f=getgroupcommand.h;h=fb438dfd91caf9a8213e780db8c7b626768873d3;hp=00c1b51936009de1fb24d5fa227cc40c3c5325dd;hb=a8e2df1b96a57f5f29576b08361b86a96a8eff4f;hpb=5e7c1cf6a6dd289a90d27c0eef7eb4675b5e17b7

diff --git a/getgroupcommand.h b/getgroupcommand.h
index 00c1b51..fb438df 100644
--- a/getgroupcommand.h
+++ b/getgroupcommand.h
@@ -6,26 +6,39 @@
  *  Mothur
  *
  *  Created by Thomas Ryabin on 2/2/09.
- *  Copyright 2009 __MyCompanyName__. All rights reserved.
+ *  Copyright 2009 Schloss Lab UMASS Amherst. All rights reserved.
  *
  */
 
-#include <iostream>
-#include <fstream>
 #include "command.hpp"
-#include "readmatrix.hpp"
-
-class GlobalData;
 
 class GetgroupCommand : public Command {
 public:
+	GetgroupCommand(string);
 	GetgroupCommand();
-	~GetgroupCommand();
-	int execute();
+	~GetgroupCommand() {}
+	
+	vector<string> setParameters();
+	string getCommandName()			{ return "get.group";				}
+	string getCommandCategory()		{ return "OTU-Based Approaches";	}
+	string getHelpString();	
+    string getOutputPattern(string)	{ return "";  }
+	string getCitation() { return "http://www.mothur.org/wiki/Get.group"; }
+	string getDescription()		{ return "outputs group names"; }
+
+	
+	int execute(); 
+	void help() { m->mothurOut(getHelpString()); }	
+	
 	
 private:
-	GlobalData* globaldata;
-	GroupMap* groupMap;
+	
+	string outputFile, sharedfile, outputDir;
+	vector<string> outputNames;
+	ofstream out;
+	ifstream in;
+	bool abort;
+
 };
 
 #endif