added concensus command and updated calcs

[mothur.git] / sharedlennon.cpp

diff --git a/sharedlennon.cpp b/sharedlennon.cpp
index b002a68f8a17af79fb04a668f1fd035332c7fa54..4846e20935757e2ed062bf95d56bd229c101fc28 100644 (file)
--- a/sharedlennon.cpp
+++ b/sharedlennon.cpp
@@ -11,7 +11,7 @@
 
 /***********************************************************************/
 
-EstOutput Lennon::getValues(SharedRAbundVector* shared1, SharedRAbundVector* shared2) {
+EstOutput Lennon::getValues(vector<SharedRAbundVector*> shared) {
        try {
                int S1, S2, S12, tempA, tempB, min;
                S1 = 0; S2 = 0; S12 = 0; tempA = 0; tempB = 0; min = 0;
@@ -21,10 +21,10 @@ EstOutput Lennon::getValues(SharedRAbundVector* shared1, SharedRAbundVector* sha
 
                data.resize(1,0);
                
-               for (int i = 0; i < shared1->size(); i++) {
+               for (int i = 0; i < shared[0]->size(); i++) {
                        //store in temps to avoid multiple repetitive function calls
-                       tempA = shared1->getAbundance(i);
-                       tempB = shared2->getAbundance(i);
+                       tempA = shared[0]->getAbundance(i);
+                       tempB = shared[1]->getAbundance(i);
                        
                        if (tempA != 0) { S1++; }
                        if (tempB != 0) { S2++; }