X-Git-Url: https://git.donarmstrong.com/?p=mothur.git;a=blobdiff_plain;f=homovacommand.h;h=22741e979ec9b0847ca660f5ab41eab49fe715d5;hp=8b31cc5a65aeedfc63412c5bc200faf6ce8fb603;hb=615301e57c25e241356a9c2380648d117709458d;hpb=e150b0b0664caec517485ee6d69dcdade6dcae77

diff --git a/homovacommand.h b/homovacommand.h
index 8b31cc5..22741e9 100644
--- a/homovacommand.h
+++ b/homovacommand.h
@@ -26,9 +26,12 @@ public:
 	vector<string> setParameters();
 	string getCommandName()			{ return "homova";					}
 	string getCommandCategory()		{ return "Hypothesis Testing";		}
-	string getHelpString();	
-	string getCitation() { return "Stewart CN, Excoffier L (1996). Assessing population genetic structure and variability with RAPD data: Application to Vaccinium macrocarpon (American Cranberry). J Evol Biol 9: 153-71. http://www.mothur.org/wiki/Homova"; }
 	
+	string getHelpString();	
+    string getOutputPattern(string);	
+	string getCitation() { return "Stewart CN, Excoffier L (1996). Assessing population genetic structure and variability with RAPD data: Application to Vaccinium macrocarpon (American Cranberry). J Evol Biol 9: 153-71. \nhttp://www.mothur.org/wiki/Homova"; }
+	string getDescription()		{ return "homova"; }
+
 	int execute();
 	void help() { m->mothurOut(getHelpString()); }	
 	
@@ -39,7 +42,7 @@ private:
 	map<string, vector<int> > getRandomizedGroups(map<string, vector<int> >);
 
 	bool abort;
-	vector<string> outputNames;
+	vector<string> outputNames, Sets;
 
 	string outputDir, inputDir, designFileName, phylipFileName;
 	GroupMap* designMap;