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[mothur.git] / sharedsobscollectsummary.cpp

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+/*
+ *  sharedsobscollectsummary.cpp
+ *  Mothur
+ *
+ *  Created by Sarah Westcott on 2/12/09.
+ *  Copyright 2009 Schloss Lab UMASS Amherst. All rights reserved.
+ *
+ */
+
+#include "sharedsobscollectsummary.h"
+
+/***********************************************************************/
+//This returns the number of shared species observed in several groups.  
+//The shared vector is each groups sharedrabundvector.
+
+EstOutput SharedSobsCS::getValues(vector<SharedRAbundVector*> shared){
+       try {
+               data.resize(1,0);
+               double observed = 0;
+               int numGroups = shared.size();
+
+               for (int i = 0; i < shared[0]->getNumBins(); i++) {
+                       //get bin values and set sharedByAll 
+                       bool sharedByAll = true;
+                       for (int j = 0; j < numGroups; j++) {
+                               if (shared[j]->getAbundance(i) == 0) { sharedByAll = false; }
+                       }
+                       
+                       //they are shared
+                       if (sharedByAll == true) {  observed++;  }
+               }
+
+               data[0] = observed;
+               return data;
+       }
+       catch(exception& e) {
+               m->errorOut(e, "SharedSobsCS", "getValues");
+               exit(1);
+       }
+}
+
+/***********************************************************************/