more calculator edits and added coverage and whittaker

[mothur.git] / whittaker.cpp

diff --git a/whittaker.cpp b/whittaker.cpp
new file mode 100644 (file)
index 0000000..95f1c9c
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+++ b/whittaker.cpp
@@ -0,0 +1,39 @@
+/*
+ *  whittaker.cpp
+ *  Mothur
+ *
+ *  Created by Pat Schloss on 4/23/09.
+ *  Copyright 2009 Patrick D. Schloss. All rights reserved.
+ *
+ */
+
+#include "whittaker.h"
+
+/***********************************************************************/
+
+EstOutput Whittaker::getValues(SharedRAbundVector* shared1, SharedRAbundVector* shared2){
+       try{
+               data.resize(1);
+
+               int countA = 0;
+               int countB = 0;
+               int sTotal = shared1->getNumBins();
+               for(int i=0;i<sTotal;i++){
+                       if(shared1->getAbundance(i) != 0){      countA++;       }
+                       if(shared2->getAbundance(i) != 0){      countB++;       }               
+               }
+               
+               data[0] = 2*sTotal/(float)(countA+countB)-1;
+               return data;
+       }
+       catch(exception& e) {
+               cout << "Standard Error: " << e.what() << " has occurred in the Whittaker class Function getValues. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
+               exit(1);
+       }
+       catch(...) {
+               cout << "An unknown error has occurred in the Whittaker class function getValues. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
+               exit(1);
+       }       
+}
+
+/***********************************************************************/
\ No newline at end of file