X-Git-Url: https://git.donarmstrong.com/?p=mothur.git;a=blobdiff_plain;f=pcacommand.h;h=482ecc3fecf678cca5853eb9c1160f005204a604;hp=379cf6e654bb72b9e5a871ea93d1c230fe819809;hb=df7e3ff9f68ef157b0328a2d353c3258c5d45d89;hpb=ca9ac1d80c62f57270b0dcd49410ebe08a8aecd6

diff --git a/pcacommand.h b/pcacommand.h
index 379cf6e..482ecc3 100644
--- a/pcacommand.h
+++ b/pcacommand.h
@@ -25,8 +25,12 @@ public:
 	vector<string> setParameters();
 	string getCommandName()			{ return "pca";					}
 	string getCommandCategory()		{ return "Hypothesis Testing";	}
-	string getHelpString();	
 	
+	string getHelpString();	
+    string getOutputPattern(string);	
+	string getCitation() { return "McCune B, Grace JB, Urban DL (2002). Analysis of ecological communities. MjM Software Design: Gleneden Beach, OR. \nLegendre P, Legendre L (1998). Numerical Ecology. Elsevier: New York. \nhttp://www.mothur.org/wiki/Pca"; }
+	string getDescription()		{ return "pca"; }
+
 	int execute(); 
 	void help() { m->mothurOut(getHelpString()); }	
 	
@@ -41,7 +45,7 @@ private:
 	
 	//vector< vector<double> > createMatrix(vector<SharedRAbundFloatVector*>);
 	int process(vector<SharedRAbundFloatVector*>&);
-	void output(string, vector<string>, vector<vector<double> >&, vector<double>);
+	void output(string, string, vector<string>, vector<vector<double> >&, vector<double>);
 	
 };