X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=getgroupcommand.h;h=7924d7b55a708886c0875bf26f173ffa13cc9da1;hb=d71a31a60542608595ce1278cc4a3398479cec7f;hp=b29673529cca9387ed4a5916166180e0a9966ead;hpb=bfbc55964f1977da72c2cea984288a427d370a59;p=mothur.git

diff --git a/getgroupcommand.h b/getgroupcommand.h
index b296735..7924d7b 100644
--- a/getgroupcommand.h
+++ b/getgroupcommand.h
@@ -6,24 +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 "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 getOutputFileNameTag(string, string) { return "";  }
+	string getHelpString();	
+	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