sharedsobscollectsummary.cpp

   1 /*
   2  *  sharedsobscollectsummary.cpp
   3  *  Mothur
   4  *
   5  *  Created by Sarah Westcott on 2/12/09.
   6  *  Copyright 2009 Schloss Lab UMASS Amherst. All rights reserved.
   7  *
   8  */
   9
  10 #include "sharedsobscollectsummary.h"
  11
  12 /***********************************************************************/
  13 //This returns the number of shared species observed in several groups.
  14 //The shared vector is each groups sharedrabundvector.
  15
  16 EstOutput SharedSobsCS::getValues(vector<SharedRAbundVector*> shared){
  17         try {
  18                 data.resize(1,0);
  19                 double observed = 0;
  20                 int numGroups = shared.size();
  21
  22                 for (int i = 0; i < shared[0]->getNumBins(); i++) {
  23                         //get bin values and set sharedByAll
  24                         bool sharedByAll = true;
  25                         for (int j = 0; j < numGroups; j++) {
  26                                 if (shared[j]->getAbundance(i) == 0) { sharedByAll = false; }
  27                         }
  28
  29                         //they are shared
  30                         if (sharedByAll == true) {  observed++;  }
  31                 }
  32
  33                 data[0] = observed;
  34                 return data;
  35         }
  36         catch(exception& e) {
  37                 m->errorOut(e, "SharedSobsCS", "getValues");
  38                 exit(1);
  39         }
  40 }
  41 /***********************************************************************/
  42 //This returns the number of shared species observed in several groups.
  43 //The shared vector is each groups sharedrabundvector.
  44
  45 EstOutput SharedSobsCS::getValues(vector<SharedRAbundVector*> shared, vector<string>& labels){
  46         try {
  47                 data.resize(1,0);
  48                 double observed = 0;
  49                 int numGroups = shared.size();
  50         labels.clear();
  51
  52                 for (int i = 0; i < shared[0]->getNumBins(); i++) {
  53                         //get bin values and set sharedByAll
  54                         bool sharedByAll = true;
  55                         for (int j = 0; j < numGroups; j++) {
  56                                 if (shared[j]->getAbundance(i) == 0) { sharedByAll = false; }
  57                         }
  58
  59                         //they are shared
  60                         if (sharedByAll == true) {  observed++;  labels.push_back(m->currentBinLabels[i]); }
  61                 }
  62
  63                 data[0] = observed;
  64                 return data;
  65         }
  66         catch(exception& e) {
  67                 m->errorOut(e, "SharedSobsCS", "getValues");
  68                 exit(1);
  69         }
  70 }
  71
  72 /***********************************************************************/