+/*
+ * 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(SharedRAbundVector* shared1, SharedRAbundVector* shared2){
+ try {
+ data.resize(1,0);
+ int observed = 0;
+ int tempA, tempB;
+
+ //loop through the species in each group
+ for (int k = 0; k < shared1->size(); k++) {
+ tempA = shared1->getAbundance(k); //store in temps to avoid calling getAbundance multiple times
+ tempB = shared2->getAbundance(k);
+
+ //if you have found a new species
+ if ((tempA != 0) && (tempB != 0)) {//they are shared
+ observed++;
+ }
+ }
+
+ data[0] = observed;
+ return data;
+ }
+ catch(exception& e) {
+ cout << "Standard Error: " << e.what() << " has occurred in the SharedSobsCS class Function getValues. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
+ exit(1);
+ }
+ catch(...) {
+ cout << "An unknown error has occurred in the SharedSobsCS class function getValues. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
+ exit(1);
+ }
+}
+
+/***********************************************************************/
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