X-Git-Url: https://git.donarmstrong.com/?p=mothur.git;a=blobdiff_plain;f=sharedsobscollectsummary.cpp;h=b53b09afc0091e91baf6609aa9c8d5b0ab528b63;hp=fffed0290b1136da46e42d31c99542da19ec9a0a;hb=1a20e24ee786195ab0e1cccd4f5aede7a88f3f4e;hpb=53171f07cc0c0e560e2b4ba2946f690d59fc2dc4

diff --git a/sharedsobscollectsummary.cpp b/sharedsobscollectsummary.cpp
index fffed02..b53b09a 100644
--- a/sharedsobscollectsummary.cpp
+++ b/sharedsobscollectsummary.cpp
@@ -38,5 +38,35 @@ EstOutput SharedSobsCS::getValues(vector<SharedRAbundVector*> shared){
 		exit(1);
 	}
 }
+/***********************************************************************/
+//This returns the number of shared species observed in several groups.  
+//The shared vector is each groups sharedrabundvector.
+
+EstOutput SharedSobsCS::getValues(vector<SharedRAbundVector*> shared, vector<string>& labels){
+	try {
+		data.resize(1,0);
+		double observed = 0;
+		int numGroups = shared.size();
+        labels.clear();
+        
+		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++;  labels.push_back(m->currentBinLabels[i]); }
+		}
+        
+		data[0] = observed;
+		return data;
+	}
+	catch(exception& e) {
+		m->errorOut(e, "SharedSobsCS", "getValues");
+		exit(1);
+	}
+}
 
 /***********************************************************************/