added otu.association command. added calcSpearman, calcKendall and calcPearson functi...

[mothur.git] / sharedace.cpp

diff --git a/sharedace.cpp b/sharedace.cpp
index 34ad28bec83ffd580e29aca410a3c2afb0a554d9..c8ba4fa2347735dc27640321c286384960ddb134 100644 (file)
--- 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. 
@@ -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);
-       }       
-
 }
 /***********************************************************************/