X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=sharedace.cpp;h=2a06380b6896ae6c908f38222abdcc566bcae077;hb=70491a12902e89b85cfa6b44a7b7fbe066ee2ac1;hp=34ad28bec83ffd580e29aca410a3c2afb0a554d9;hpb=50ed3b6104d5821d6184f882e1e1423d47dcbf10;p=mothur.git

diff --git a/sharedace.cpp b/sharedace.cpp
index 34ad28b..2a06380 100644
--- a/sharedace.cpp
+++ b/sharedace.cpp
@@ -18,10 +18,10 @@ EstOutput SharedAce::getValues(vector<SharedRAbundVector*> shared) {
 		string label;
 		label = shared[0]->getLabel();
 
-		int fARare, fBRare, S12Rare, S12Abund, S12, f11, tempA, tempB, t10, t01, t11, t21, t12, t22, C12Numerator;
+		double fARare, fBRare, S12Rare, S12Abund, S12, f11, tempA, tempB, t10, t01, t11, t21, t12, t22, C12Numerator;
 		fARare = 0; fBRare = 0; S12Rare = 0; S12Abund = 0; S12 = 0; f11 = 0; t10 = 0; t01 = 0; t11= 0; t21= 0; t12= 0; t22= 0; C12Numerator = 0;
 	
-		float Sharedace, C12, part1, part2, part3, part4, part5, Gamma1, Gamma2, Gamma3;
+		double Sharedace, C12, part1, part2, part3, part4, part5, Gamma1, Gamma2, Gamma3;
 	
 		/*fARare = number of OTUs with one individual found in A and less than or equal to 10 in B. 
 		fBRare = number of OTUs with one individual found in B and less than or equal to 10 in A. 
@@ -32,7 +32,7 @@ EstOutput SharedAce::getValues(vector<SharedRAbundVector*> shared) {
 		S12 = number of shared OTUs in A and B
 		This estimator was changed to reflect Caldwell's changes, eliminating the nrare / nrare - 1 */
 
-		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);
@@ -89,7 +89,7 @@ EstOutput SharedAce::getValues(vector<SharedRAbundVector*> shared) {
 		if (isnan(Gamma3) || isinf(Gamma3)) { Gamma3 = 0; }
 		if (isnan(part1)  || isinf(part1))  { part1 = 0;  }
 		if (isnan(part2)  || isinf(part2))  { part2 = 0;  }
-			
+		
 		part3 = fARare * Gamma1;
 		part4 = fBRare * Gamma2;
 		part5 = f11 * Gamma3;
@@ -100,14 +100,9 @@ EstOutput SharedAce::getValues(vector<SharedRAbundVector*> shared) {
 		return data;
 	}
 	catch(exception& e) {
-		cout << "Standard Error: " << e.what() << " has occurred in the SharedAce class Function getValues. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
+		m->errorOut(e, "SharedAce", "getValues");
 		exit(1);
 	}
-	catch(...) {
-		cout << "An unknown error has occurred in the SharedAce class function getValues. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
-		exit(1);
-	}	
-
 }
 /***********************************************************************/