X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=phylotypecommand.h;h=534dc8eefcc643bda6f71d23291462b01c4d3940;hb=767c2ab76d70664af19b1afca8e1fd5233962698;hp=a0411308e01121af1a56a68dd28218b421598cbc;hpb=e150b0b0664caec517485ee6d69dcdade6dcae77;p=mothur.git

diff --git a/phylotypecommand.h b/phylotypecommand.h
index a041130..534dc8e 100644
--- a/phylotypecommand.h
+++ b/phylotypecommand.h
@@ -26,9 +26,12 @@ public:
 	vector<string> setParameters();
 	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()); }
 	
@@ -39,7 +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;