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[mothur.git] / sharedsobs.cpp

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+/*
+ *  sharedsobs.cpp
+ *  Dotur
+ *
+ *  Created by Sarah Westcott on 1/7/09.
+ *  Copyright 2009 Schloss Lab UMASS Amherst. All rights reserved.
+ *
+ */
+
+#include "sharedsobs.h"
+
+/***********************************************************************/
+//This returns the number of unique species observed in several groups.  
+//The shared vector is each groups sharedrabundvector.
+
+EstOutput SharedSobs::getValues(vector<SharedRAbundVector*> shared){
+       try {
+               data.resize(1,0);
+               double observed = 0;
+
+               //loop through the species in each group
+               for (int k = 0; k < shared[0]->getNumBins(); k++) {
+                       //if you have found a new species
+                       if (shared[0]->getAbundance(k) != 0) { observed++; } 
+                       else if ((shared[0]->getAbundance(k) == 0) && (shared[1]->getAbundance(k) != 0)) { observed++; }
+               }
+
+               data[0] = observed;
+               return data;
+       }
+       catch(exception& e) {
+               m->errorOut(e, "SharedSobs", "getValues");
+               exit(1);
+       }
+}
+
+/***********************************************************************/