X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=structchord.cpp;fp=structchord.cpp;h=e85846f9d657466a2609837f5db4fe897f9dc472;hb=7d38edc137a66a33f67f8cf55cce88331290aaf7;hp=0000000000000000000000000000000000000000;hpb=75c5a235ac3eb22e0f97d36874f4b2dcf9591f2e;p=mothur.git

diff --git a/structchord.cpp b/structchord.cpp
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--- /dev/null
+++ b/structchord.cpp
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+/*
+ *  structchord.cpp
+ *  Mothur
+ *
+ *  Created by westcott on 12/15/10.
+ *  Copyright 2010 Schloss Lab. All rights reserved.
+ *
+ */
+
+#include "structchord.h"
+
+/***********************************************************************/
+EstOutput StructChord::getValues(vector<SharedRAbundVector*> shared) {
+	try {
+		data.resize(1,0);
+		
+		double sumAj2 = 0.0;
+		double sumBj2 = 0.0;
+		
+		//calc the 2 denominators
+		for (int i = 0; i < shared[0]->getNumBins(); i++) { 
+			
+			int Aij = shared[0]->getAbundance(i);
+			int Bij = shared[1]->getAbundance(i);
+			
+			//(Aij) ^ 2
+			sumAj2 += (Aij * Aij);
+			sumBj2 += (Bij * Bij);
+		}
+		
+		sumAj2 = sqrt(sumAj2);
+		sumBj2 = sqrt(sumBj2);
+		
+		//calc sum
+		double sum = 0.0;
+		for (int i = 0; i < shared[0]->getNumBins(); i++) { 
+			
+			int Aij = shared[0]->getAbundance(i);
+			int Bij = shared[1]->getAbundance(i);
+			
+			sum += (((Aij / sumAj2) - (Bij / sumBj2)) * ((Aij / sumAj2) - (Bij / sumBj2)));
+		}
+		
+		data[0] = sqrt(sum);
+		
+		if (isnan(data[0]) || isinf(data[0])) { data[0] = 0; }
+		
+		return data;
+	}
+	catch(exception& e) {
+		m->errorOut(e, "StructChord", "getValues");
+		exit(1);
+	}
+}
+/***********************************************************************/