moved mothur's source into a folder to make grabbing just the source easier on github

[mothur.git] / structchi2.cpp

diff --git a/structchi2.cpp b/structchi2.cpp
deleted file mode 100644 (file)
index 00ec097..0000000
--- a/structchi2.cpp
+++ /dev/null
@@ -1,56 +0,0 @@
-/*
- *  structchi2.cpp
- *  Mothur
- *
- *  Created by westcott on 12/17/10.
- *  Copyright 2010 Schloss Lab. All rights reserved.
- *
- */
-
-#include "structchi2.h"
-
-/***********************************************************************/
-EstOutput StructChi2::getValues(vector<SharedRAbundVector*> shared) {
-       try {
-               data.resize(1,0);
-               
-               double sumA = shared[0]->getNumSeqs();
-               double sumB = shared[1]->getNumSeqs();
-               double totalSum = 0.0;
-               
-               for (int i = 0; i < shared.size(); i++) { totalSum += shared[i]->getNumSeqs();  }
-               
-               vector<int> sumOtus; sumOtus.resize(shared[0]->getNumBins(), 0);
-               //for each otu
-               for (int i = 0; i < shared[0]->getNumBins(); i++) {
-                       //for each group
-                       for (int j = 0; j < shared.size(); j++) { 
-                               sumOtus[i] += shared[j]->getAbundance(i);
-                       }
-               }
-               
-               double sum = 0.0;
-               for (int i = 0; i < shared[0]->getNumBins(); i++) {
-                       int A = shared[0]->getAbundance(i);
-                       int B = shared[1]->getAbundance(i);
-                       
-                       double totalTerm = 1 / (float) sumOtus[i];
-                       double Aterm = A / sumA;
-                       double Bterm = B / sumB;
-                       
-                       sum += (totalTerm * ((Aterm-Bterm)*(Aterm-Bterm)));
-               }
-                               
-               data[0] = sqrt((totalSum * sum));
-               
-               if (isnan(data[0]) || isinf(data[0])) { data[0] = 0; }
-               
-               return data;
-       }
-       catch(exception& e) {
-               m->errorOut(e, "StructChi2", "getValues");
-               exit(1);
-       }
-}
-/***********************************************************************/
-