X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=rarefactcommand.h;h=9c7e1ed34fcffebaf73f4499bd6637d0d36c2b68;hb=d71a31a60542608595ce1278cc4a3398479cec7f;hp=72d24151193076eea753f5b17d97e135da7d42d0;hpb=1b0bddfbf4ac5df7e2dad03c8a5350e71b052f78;p=mothur.git

diff --git a/rarefactcommand.h b/rarefactcommand.h
index 72d2415..9c7e1ed 100644
--- a/rarefactcommand.h
+++ b/rarefactcommand.h
@@ -26,6 +26,7 @@ public:
 	vector<string> setParameters();
 	string getCommandName()			{ return "rarefaction.single";		}
 	string getCommandCategory()		{ return "OTU-Based Approaches";	}
+	string getOutputFileNameTag(string, string);
 	string getHelpString();	
 	string getCitation() { return "Magurran AE (2004). Measuring biological diversity. Blackwell Pub.: Malden, Ma. \nhttp://www.mothur.org/wiki/Rarefaction.single"; }
 	string getDescription()		{ return "generate intra-sample rarefaction curves using a re-sampling without replacement approach"; }
@@ -50,8 +51,8 @@ private:
 	vector<string> groups;
 	string outputDir;
 	
-	vector<string> parseSharedFile(string);
-	vector<string> createGroupFile(vector<string>&, map<string, string>);
+	vector<string> parseSharedFile(string, map<string, set<int> >&);
+	vector<string> createGroupFile(vector<string>&, map<int, string>);
 };
 
 #endif