added otu.association command. added calcSpearman, calcKendall and calcPearson functi...

[mothur.git] / heatmapsimcommand.h

diff --git a/heatmapsimcommand.h b/heatmapsimcommand.h
index 2a2c3676b31610b32dcb4b3996dc7134aa6078ed..74e20bebb35863128f72c3d85a8398c87ad9a5b2 100644 (file)
--- a/heatmapsimcommand.h
+++ b/heatmapsimcommand.h
@@ -27,7 +27,9 @@ public:
        string getCommandName()                 { return "heatmap.sim";                         }
        string getCommandCategory()             { return "OTU-Based Approaches";        }
        string getHelpString(); 
-       
+       string getCitation() { return "http://www.mothur.org/wiki/Heatmap.sim"; }
+       string getDescription()         { return "generate a heatmap indicating the pairwise distance between multiple samples using a variety of calculators"; }
+
        int execute(); 
        void help() { m->mothurOut(getHelpString()); }  
        
@@ -36,13 +38,13 @@ private:
        InputData* input;
        vector<SharedRAbundVector*> lookup;
        vector<Calculator*> heatCalculators;
-       ValidCalculators* validCalculator;
        HeatMapSim* heatmap;
        OptionParser* parser;
        bool abort, allLines;
        set<string> labels; //holds labels to be used
        string format, groups, label, calc, sharedfile, phylipfile, columnfile, namefile, outputDir, inputfile;
        vector<string> Estimators, Groups, outputNames;
+       int fontsize;
        
        int runCommandShared();
        int runCommandDist();