X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=sharedthetan.cpp;fp=sharedthetan.cpp;h=0000000000000000000000000000000000000000;hb=4a877efa127e56e81a21f53cfdbbfd3bfbe8c4ff;hp=644adee677820f92a7c8cf87c41d65908a1e957b;hpb=a6cf29fa4dac0909c7582cb1094151d34093ee76;p=mothur.git

diff --git a/sharedthetan.cpp b/sharedthetan.cpp
deleted file mode 100644
index 644adee..0000000
--- a/sharedthetan.cpp
+++ /dev/null
@@ -1,59 +0,0 @@
-/*
- *  sharedthetan.cpp
- *  Dotur
- *
- *  Created by Sarah Westcott on 1/8/09.
- *  Copyright 2009 Schloss Lab UMASS Amherst. All rights reserved.
- *
- */
-
-#include "sharedthetan.h"
-
-/***********************************************************************/
-EstOutput ThetaN::getValues(vector<SharedRAbundVector*> shared) {
-	try {	
-		data.resize(1,0);
-		
-		double Atotal, Btotal, tempA, tempB;
-		Atotal = 0; Btotal = 0; 
-		double numerator, denominator, thetaN, sumSharedA, sumSharedB, a, b, d;
-		numerator = 0.0; denominator = 0.0; thetaN = 0.0; sumSharedA = 0.0; sumSharedB = 0.0; a = 0.0; b = 0.0; d = 0.0;
-		
-		//get the total values we need to calculate the theta denominator sums
-		for (int i = 0; i < shared[0]->getNumBins(); i++) {
-			//store in temps to avoid multiple repetitive function calls
-			Atotal += shared[0]->getAbundance(i);
-			Btotal += shared[1]->getAbundance(i);
-		}
-		
-		//calculate the theta denominator sums
-		for (int j = 0; j < shared[0]->getNumBins(); j++) {
-			//store in temps to avoid multiple repetitive function calls
-			tempA = shared[0]->getAbundance(j);
-			tempB = shared[1]->getAbundance(j);
-			
-			//they are shared
-			if ((tempA != 0) && (tempB != 0)) {
-				if (Atotal != 0)	{ sumSharedA = (tempA / (float)Atotal); }
-				if (Btotal != 0)	{ sumSharedB = (tempB / (float)Btotal); }
-			
-				a += sumSharedA;
-				b += sumSharedB;
-			}
-		}
-
-		thetaN = (a * b) / (a + b - (a * b));
-		
-		if (isnan(thetaN) || isinf(thetaN)) { thetaN = 0; }
-		
-		data[0] = 1.0 - thetaN;
-		
-		return data;
-	}
-	catch(exception& e) {
-		m->errorOut(e, "ThetaN", "getValues");
-		exit(1);
-	}
-}
-
-/***********************************************************************/