X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=matrixoutputcommand.h;h=8a04c96a32ed6fa769a4e14474dfb624451751d1;hb=deba0af0ccdcb6005ed5b2b82649b137c63fbdf7;hp=8af539ba01ae59ed07027d63f2bd9d1859b4c217;hpb=0caf3fbabaa3ece404f8ce77f4c883dc5b1bf1dc;p=mothur.git

diff --git a/matrixoutputcommand.h b/matrixoutputcommand.h
index 8af539b..8a04c96 100644
--- a/matrixoutputcommand.h
+++ b/matrixoutputcommand.h
@@ -73,7 +73,9 @@ public:
 	vector<string> setParameters();
 	string getCommandName()			{ return "dist.shared";				}
 	string getCommandCategory()		{ return "OTU-Based Approaches";	}
+	
 	string getHelpString();	
+    string getOutputPattern(string);	
 	string getCitation() { return "http://www.mothur.org/wiki/Dist.shared"; }
 	string getDescription()		{ return "generate a distance matrix that describes the dissimilarity among multiple groups"; }
 
@@ -101,7 +103,7 @@ private:
 
 	bool abort, allLines, subsample;
 	set<string> labels; //holds labels to be used
-	string outputFile, calc, groups, label, outputDir;
+	string outputFile, calc, groups, label, outputDir, mode;
 	vector<string>  Estimators, Groups, outputNames; //holds estimators to be used
 	int process(vector<SharedRAbundVector*>, string, string);
 	int driver(vector<SharedRAbundVector*>, int, int, vector< vector<seqDist> >&);