speciesprofile.cpp

   1 /*
   2  *  speciesprofile.cpp
   3  *  Mothur
   4  *
   5  *  Created by westcott on 12/15/10.
   6  *  Copyright 2010 Schloss Lab. All rights reserved.
   7  *
   8  */
   9
  10 #include "speciesprofile.h"
  11
  12 /***********************************************************************/
  13 EstOutput SpeciesProfile::getValues(vector<SharedRAbundVector*> shared) {
  14         try {
  15                 data.resize(1,0);
  16
  17                 double sumA = 0.0;
  18                 double sumB = 0.0;
  19
  20                 for (int i = 0; i < shared[0]->getNumBins(); i++) {
  21                         sumA += shared[0]->getAbundance(i);
  22                         sumB += shared[1]->getAbundance(i);
  23                 }
  24
  25                 double sum = 0.0;
  26                 for (int i = 0; i < shared[0]->getNumBins(); i++) {
  27                         int A = shared[0]->getAbundance(i);
  28                         int B = shared[1]->getAbundance(i);
  29
  30                         sum += (((A / sumA) - (B / sumB)) * ((A / sumA) - (B / sumB)));
  31                 }
  32
  33                 data[0] = sqrt(sum);
  34
  35                 if (isnan(data[0]) || isinf(data[0])) { data[0] = 0; }
  36
  37                 return data;
  38         }
  39         catch(exception& e) {
  40                 m->errorOut(e, "SpeciesProfile", "getValues");
  41                 exit(1);
  42         }
  43 }
  44 /***********************************************************************/
  45