X-Git-Url: https://git.donarmstrong.com/?p=mothur.git;a=blobdiff_plain;f=makegroupcommand.h;h=f86c707d4516160d0dc9cc99243f54bea34d191a;hp=260deaa5637a580c24d6be89b1c8b822ba262591;hb=1a20e24ee786195ab0e1cccd4f5aede7a88f3f4e;hpb=8bc3e5b38c2317a1715f53be22fa96455868c281

diff --git a/makegroupcommand.h b/makegroupcommand.h
index 260deaa..f86c707 100644
--- a/makegroupcommand.h
+++ b/makegroupcommand.h
@@ -17,20 +17,25 @@ class MakeGroupCommand : public Command {
 public:
 	MakeGroupCommand(string);
 	MakeGroupCommand();	
-	~MakeGroupCommand();
-	vector<string> getRequiredParameters();
-	vector<string> getValidParameters();
-	vector<string> getRequiredFiles();
-	map<string, vector<string> > getOutputFiles() { return outputTypes; }
+	~MakeGroupCommand(){}
+	
+	vector<string> setParameters();
+	string getCommandName()			{ return "make.group";	}
+	string getCommandCategory()		{ return "General";		}
+	
+	string getHelpString();	
+    string getOutputPattern(string);	
+	string getCitation() { return "http://www.mothur.org/wiki/Make.group"; }
+	string getDescription()		{ return "creates a group file"; }
+
 	int execute(); 
-	void help();	
+	void help() { m->mothurOut(getHelpString()); }	
 	
 private:
 		
-	string fastaFileName, groups, outputDir, filename;
+	string fastaFileName, groups, outputDir, filename, output;
 	vector<string> fastaFileNames;
 	vector<string> groupsNames, outputNames;
-	map<string, vector<string> > outputTypes;
 	
 	bool abort;
 };