X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=clustercommand.h;h=96b7c08861f216862de0c1e600d07fed463eb56a;hb=bd27c2b0612942815b7417c79f7ee41f669a2a34;hp=f70bb322c76cd3bf897fd5498333e5da379557fd;hpb=5a4ac4f954c4b4445bcee272f1f8220ddcc9c1e4;p=mothur.git

diff --git a/clustercommand.h b/clustercommand.h
index f70bb32..96b7c08 100644
--- a/clustercommand.h
+++ b/clustercommand.h
@@ -35,9 +35,10 @@ public:
 	vector<string> setParameters();
 	string getCommandName()			{ return "cluster";		}
 	string getCommandCategory()		{ return "Clustering";	}
-	string getOutputFileNameTag(string, string);
+	
 	string getHelpString();	
-	string getCitation() { return "Schloss PD, Westcott SL (2011). Assessing and improving methods used in OTU-based approaches for 16S rRNA gene sequence analysis. Appl Environ Microbiol. \nhttp://www.mothur.org/wiki/Cluster"; }
+    string getOutputPattern(string);	
+	string getCitation() { return "Schloss PD, Westcott SL (2011). Assessing and improving methods used in OTU-based approaches for 16S rRNA gene sequence analysis. Appl Environ Microbiol 77:3219.\nSchloss PD, Handelsman J (2005). Introducing DOTUR, a computer program for defining operational taxonomic units and estimating species richness. Appl Environ Microbiol 71: 1501-6.\nhttp://www.mothur.org/wiki/Cluster"; }
 	string getDescription()		{ return "cluster your sequences into OTUs using a distance matrix"; }
 	
 	int execute();