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

[mothur.git] / gower.cpp

diff --git a/gower.cpp b/gower.cpp
deleted file mode 100644 (file)
index 5f0bf68..0000000
--- a/gower.cpp
+++ /dev/null
@@ -1,56 +0,0 @@
-/*
- *  gower.cpp
- *  Mothur
- *
- *  Created by westcott on 12/17/10.
- *  Copyright 2010 Schloss Lab. All rights reserved.
- *
- */
-
-#include "gower.h"
-
-/***********************************************************************/
-EstOutput Gower::getValues(vector<SharedRAbundVector*> shared) {
-       try {
-               data.resize(1,0);
-               
-               vector<int> maxOtus; maxOtus.resize(shared[0]->getNumBins());
-               vector<int> minOtus; minOtus.resize(shared[0]->getNumBins());
-               //for each otu
-               for (int i = 0; i < shared[0]->getNumBins(); i++) {
-                       
-                       //set otus min and max to first one
-                       minOtus[i] = shared[0]->getAbundance(i);
-                       maxOtus[i] = shared[0]->getAbundance(i);
-                       
-                       //for each group
-                       for (int j = 1; j < shared.size(); j++) { 
-                               maxOtus[i] = max(shared[j]->getAbundance(i), maxOtus[i]);
-                               minOtus[i] = min(shared[j]->getAbundance(i), minOtus[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 numerator = abs(A - B);
-                       double denominator = maxOtus[i] - minOtus[i];
-                               
-                       if (denominator != 0) { sum += (numerator / denominator); }
-               }
-               
-               data[0] = sum;
-               
-               if (isnan(data[0]) || isinf(data[0])) { data[0] = 0; }
-               
-               return data;
-       }
-       catch(exception& e) {
-               m->errorOut(e, "Gower", "getValues");
-               exit(1);
-       }
-}
-/***********************************************************************/
-