X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=sharedjest.cpp;fp=sharedjest.cpp;h=0000000000000000000000000000000000000000;hb=4a877efa127e56e81a21f53cfdbbfd3bfbe8c4ff;hp=9a1cfbb5a1567153628a1213a494c36242e1d763;hpb=a6cf29fa4dac0909c7582cb1094151d34093ee76;p=mothur.git

diff --git a/sharedjest.cpp b/sharedjest.cpp
deleted file mode 100644
index 9a1cfbb..0000000
--- a/sharedjest.cpp
+++ /dev/null
@@ -1,60 +0,0 @@
-/*
- *  sharedjest.cpp
- *  Dotur
- *
- *  Created by Sarah Westcott on 1/8/09.
- *  Copyright 2009 Schloss Lab UMASS Amherst. All rights reserved.
- *
- */
- 
-#include "sharedchao1.h"
-#include "chao1.h"
-#include "sharedjest.h"
-
-
-/***********************************************************************/
-
-EstOutput Jest::getValues(vector<SharedRAbundVector*> shared) {
-	try {
-		EstOutput S1, S2, S12;
-		S12.resize(1,0);
-		S1.resize(3,0);
-		S2.resize(3,0); 
-		
-		/*S1, S2 = number of OTUs estimated in A and B using the Chao estimator
-		S12 = estimated number of OTUs shared between A and B using the SharedChao estimator*/
-
-		data.resize(1,0);
-		
-		SharedChao1* sharedChao = new SharedChao1();
-		Chao1* chaoS1 = new Chao1();
-		Chao1* chaoS2 = new Chao1();
-		SAbundVector* chaoS1Sabund = new SAbundVector();
-		SAbundVector* chaoS2Sabund = new SAbundVector();
-		
-		*chaoS1Sabund = shared[0]->getSAbundVector();
-		*chaoS2Sabund = shared[1]->getSAbundVector();
-		
-		S12 = sharedChao->getValues(shared);
-		S1 = chaoS1->getValues(chaoS1Sabund);
-		S2 = chaoS2->getValues(chaoS2Sabund);
-		
-		data[0] = 1.0 - S12[0] / (float)(S1[0] + S2[0] - S12[0]);
-		
-		if (isnan(data[0]) || isinf(data[0])) { data[0] = 0; }
-		
-		delete sharedChao;
-		delete chaoS1;
-		delete chaoS2;
-		delete chaoS1Sabund;
-		delete chaoS2Sabund;
-		
-		return data;
-	}
-	catch(exception& e) {
-		m->errorOut(e, "Jest", "getValues");
-		exit(1);
-	}
-}
-
-/***********************************************************************/