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

[mothur.git] / sharedkstest.cpp

diff --git a/sharedkstest.cpp b/sharedkstest.cpp
deleted file mode 100644 (file)
index d914788..0000000
--- a/sharedkstest.cpp
+++ /dev/null
@@ -1,64 +0,0 @@
-/*
- *  kstest.cpp
- *  Mothur
- *
- *  Created by Thomas Ryabin on 3/6/09.
- *  Copyright 2009 Schloss Lab UMASS Amherst. All rights reserved.
- *
- */
-
-#include "sharedkstest.h"
-
-/***********************************************************************/
-
-EstOutput KSTest::getValues(vector<SharedRAbundVector*> shared){
-       try {
-               data.resize(3,0);
-
-               //Must return shared1 and shared2 to original order at conclusion of kstest
-               vector <individual> initData1 = shared[0]->getData();
-               vector <individual> initData2 = shared[1]->getData();
-               shared[0]->sortD();
-               shared[1]->sortD();
-
-               int numNZ1 = shared[0]->numNZ();
-               int numNZ2 = shared[1]->numNZ();
-               double numInd1 = (double)shared[0]->getNumSeqs();
-               double numInd2 = (double)shared[1]->getNumSeqs();
-               
-               double maxDiff = -1;
-               double sum1 = 0;
-               double sum2 = 0;
-               for(int i = 1; i < shared[0]->getNumBins(); i++)
-               {
-                       sum1 += shared[0]->get(i).abundance;
-                       sum2 += shared[1]->get(i).abundance;
-                       double diff = fabs((double)sum1/numInd1 - (double)sum2/numInd2);
-                       if(diff > maxDiff)
-                               maxDiff = diff;
-               }
-               
-               double DStatistic = maxDiff*numNZ1*numNZ2;
-               double a = pow((double)(numNZ1 + numNZ2)/(numNZ1*numNZ2),.5);
-               //double pVal = exp(-2*pow(maxDiff/a,2));
-               double critVal = 1.36*a*numNZ1*numNZ2;
-               
-               shared[0]->setData(initData1);
-               shared[1]->setData(initData2);
-               
-               data[0] = DStatistic;
-               data[1] = critVal;
-               data[2] = 0;
-               
-               if (isnan(data[0]) || isinf(data[0])) { data[0] = 0; }
-               if (isnan(data[1]) || isinf(data[1])) { data[1] = 0; }
-
-               return data;
-       }
-       catch(exception& e) {
-               m->errorOut(e, "KSTest", "getValues");
-               exit(1);
-       }
-}
-
-/***********************************************************************/