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[mothur.git] / goodscoverage.cpp

diff --git a/goodscoverage.cpp b/goodscoverage.cpp
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+++ b/goodscoverage.cpp
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+/*
+ *  goodscoverage.cpp
+ *  Mothur
+ *
+ *  Created by Thomas Ryabin on 4/8/09.
+ *  Copyright 2009 __MyCompanyName__. All rights reserved.
+ *
+ */
+
+#include "goodscoverage.h"
+#include "calculator.h"
+
+/**********************************************************/
+
+EstOutput GoodsCoverage::getValues(SAbundVector* rank){
+       try {
+               data.resize(1,0);
+               
+               double numSingletons = rank->get(1);
+               double totalIndividuals = rank->getNumSeqs();
+               
+               data[0] = 1 - numSingletons/totalIndividuals;
+               
+               if (isnan(data[0]) || isinf(data[0])) { data[0] = 0; }
+
+               return data;
+       }
+       catch(exception& e) {
+               cout << "Standard Error: " << e.what() << " has occurred in the GoodsCoverage class Function getValues. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
+               exit(1);
+       }
+       catch(...) {
+               cout << "An unknown error has occurred in the GoodsCoverage class function getValues. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
+               exit(1);
+       }       
+}
+
+/***********************************************************************/
+