X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=sharedkulczynskicody.cpp;h=8c8b7f7f4e181760b5bc9c7adb8117ab535b5c3d;hb=250e3b11b1c9c1e1ad458ab6c7e71ac2e67e11d9;hp=7ae67003cce980fe676f2648887ea4fcea23e554;hpb=50ed3b6104d5821d6184f882e1e1423d47dcbf10;p=mothur.git

diff --git a/sharedkulczynskicody.cpp b/sharedkulczynskicody.cpp
index 7ae6700..8c8b7f7 100644
--- a/sharedkulczynskicody.cpp
+++ b/sharedkulczynskicody.cpp
@@ -13,7 +13,7 @@
 
 EstOutput KulczynskiCody::getValues(vector<SharedRAbundVector*> shared) {
 	try {
-		int S1, S2, S12, tempA, tempB;
+		double S1, S2, S12, tempA, tempB;
 		S1 = 0; S2 = 0; S12 = 0; tempA = 0; tempB = 0; 
 		
 		/*S1, S2 = number of OTUs observed or estimated in A and B 
@@ -21,7 +21,7 @@ EstOutput KulczynskiCody::getValues(vector<SharedRAbundVector*> shared) {
 
 		data.resize(1,0);
 		
-		for (int i = 0; i < shared[0]->size(); i++) {
+		for (int i = 0; i < shared[0]->getNumBins(); i++) {
 			//store in temps to avoid multiple repetitive function calls
 			tempA = shared[0]->getAbundance(i);
 			tempB = shared[1]->getAbundance(i);
@@ -33,20 +33,16 @@ EstOutput KulczynskiCody::getValues(vector<SharedRAbundVector*> shared) {
 			if ((tempA != 0) && (tempB != 0)) {	S12++; }
 		}
 		
-		data[0] = 0.5 * ((S12 / (float)S1) + (S12 / (float)S2));
+		data[0] = 1.0 - 0.5 * ((S12 / (float)S1) + (S12 / (float)S2));
 		
 		if (isnan(data[0]) || isinf(data[0])) { data[0] = 0; }
 		
 		return data;
 	}
 	catch(exception& e) {
-		cout << "Standard Error: " << e.what() << " has occurred in the KulczynskiCody class Function getValues. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
+		m->errorOut(e, "KulczynskiCody", "getValues");
 		exit(1);
 	}
-	catch(...) {
-		cout << "An unknown error has occurred in the KulczynskiCody class Function getValues. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
-		exit(1);
-	}	
 }
 
 /***********************************************************************/