X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=setdircommand.h;h=36753edeb57f8601dd0a1f5309b9c1cf67109429;hb=a0f1fca79d2ddfa7ad36b4485039c68b5704fe8d;hp=b3b00c46c65b65f1c7f243221ceb4e814a37dbc5;hpb=0caf3fbabaa3ece404f8ce77f4c883dc5b1bf1dc;p=mothur.git

diff --git a/setdircommand.h b/setdircommand.h
index b3b00c4..36753ed 100644
--- a/setdircommand.h
+++ b/setdircommand.h
@@ -25,7 +25,9 @@ public:
 	vector<string> setParameters();
 	string getCommandName()			{ return "set.dir";		}
 	string getCommandCategory()		{ return "General";		}
+	
 	string getHelpString();	
+    string getOutputPattern(string){ return ""; }	
 	string getCitation() { return "http://www.mothur.org/wiki/Set.dir"; }
 	string getDescription()		{ return "set input, output and default directories"; }
 
@@ -35,7 +37,7 @@ public:
 private:
 	CommandFactory* commandFactory;
 	string output, input, tempdefault;
-	bool abort;
+	bool abort, debugOnly, modifyNames;
 	vector<string> outputNames;