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[mothur.git] / hamming.cpp

diff --git a/hamming.cpp b/hamming.cpp
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+/*
+ *  hamming.cpp
+ *  Mothur
+ *
+ *  Created by westcott on 12/15/10.
+ *  Copyright 2010 Schloss Lab. All rights reserved.
+ *
+ */
+
+#include "hamming.h"
+
+/***********************************************************************/
+EstOutput Hamming::getValues(vector<SharedRAbundVector*> shared) {
+       try {
+               data.resize(1,0);
+               
+               int numA = 0;
+               int numB = 0;
+               int numShared = 0;
+               
+               //calc the 2 denominators
+               for (int i = 0; i < shared[0]->getNumBins(); i++) { 
+                       int A = shared[0]->getAbundance(i);
+                       int B = shared[1]->getAbundance(i);
+                       
+                       if (A != 0) { numA++; }
+                       if (B != 0) { numB++; }
+                       if ((A != 0) && (B != 0)) { numShared++; }
+               }
+               
+               data[0] = numA + numB - (2 * numShared);
+               
+               if (isnan(data[0]) || isinf(data[0])) { data[0] = 0; }
+               
+               return data;
+       }
+       catch(exception& e) {
+               m->errorOut(e, "Hamming", "getValues");
+               exit(1);
+       }
+}
+/***********************************************************************/
+