changing command name classify.shared to classifyrf.shared

[mothur.git] / pcacommand.h

diff --git a/pcacommand.h b/pcacommand.h
index 379cf6e654bb72b9e5a871ea93d1c230fe819809..482ecc3fecf678cca5853eb9c1160f005204a604 100644 (file)
--- 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>);
        
 };