X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=phylotypecommand.h;h=534dc8eefcc643bda6f71d23291462b01c4d3940;hb=67ea6ccd74dbd64828d31b952808255f206364ff;hp=36e679f28aab41ec31848084b117845a9ecab12c;hpb=ca9ac1d80c62f57270b0dcd49410ebe08a8aecd6;p=mothur.git

diff --git a/phylotypecommand.h b/phylotypecommand.h
index 36e679f..534dc8e 100644
--- a/phylotypecommand.h
+++ b/phylotypecommand.h
@@ -24,10 +24,14 @@ public:
 	~PhylotypeCommand(){}
 	
 	vector<string> setParameters();
-	string getCommandName()			{ return "phylotype";				}
-	string getCommandCategory()		{ return "OTU-Based Approaches";	}
-	string getHelpString();	
+	string getCommandName()			{ return "phylotype";		}
+	string getCommandCategory()		{ return "Clustering";		}
 	
+	string getHelpString();	
+    string getOutputPattern(string);	
+	string getCitation() { return "http://www.mothur.org/wiki/Phylotype"; }
+	string getDescription()		{ return "cluster your sequences into OTUs based on their classifications"; }
+
 	int execute();
 	void help() { m->mothurOut(getHelpString()); }
 	
@@ -38,7 +42,6 @@ private:
 	int cutoff;
 	map<string, string> namemap;
 	vector<string> outputNames;
-	map<string, vector<string> > outputTypes;
 	
 	map<int, int> currentNodes;
 	map<int, int> parentNodes;