BCEfficiencyFitter.cxx

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/*
 * Copyright (C) 2008, Daniel Kollar and Kevin Kroeninger.
 * All rights reserved.
 *
 * For the licensing terms see doc/COPYING.
 */

// ---------------------------------------------------------

#include <TH1D.h>
#include <TH2D.h>
#include <TF1.h>
#include <TGraph.h>
#include <TGraphAsymmErrors.h>
#include <TString.h>
#include <TPad.h>
#include <TRandom3.h>
#include <TLegend.h>
#include <TMath.h>

#include "BAT/BCLog.h"
#include "BAT/BCDataSet.h"
#include "BAT/BCDataPoint.h"
#include "BAT/BCMath.h"
#include "BAT/BCH1D.h"

#include "BCEfficiencyFitter.h"

// ---------------------------------------------------------

BCEfficiencyFitter::BCEfficiencyFitter() : BCModel("EfficiencyFitter")
{
   fHistogram1 = 0;
   fHistogram2 = 0;
   fHistogramBinomial = 0;
   fFitFunction = 0;

   fDataPointType = 1;

   // set default options and values
   MCMCSetNIterationsRun(2000);
   MCMCSetRValueCriterion(0.01);
   SetFillErrorBand();
   fFlagIntegration = false;
}

// ---------------------------------------------------------

BCEfficiencyFitter::BCEfficiencyFitter(TH1D * hist1, TH1D * hist2, TF1 * func) : BCModel("EfficiencyFitter")
{
   fHistogram1 = 0;
   fHistogram2 = 0;
   fHistogramBinomial = 0;
   fFitFunction = 0;

   fDataPointType = 1;

   SetHistograms(hist1, hist2);
   SetFitFunction(func);

   MCMCSetNIterationsRun(2000);
   MCMCSetRValueCriterion(0.01);
   SetFillErrorBand();
   fFlagIntegration = false;
}

// ---------------------------------------------------------

int BCEfficiencyFitter::SetHistograms(TH1D * hist1, TH1D * hist2)
{
   // check if histogram exists
   if (!hist1 || !hist2) {
      BCLog::OutError("BCEfficiencyFitter::SetHistograms : TH1D not created.");
      return 0;
   }

   // check compatibility of both histograms : number of bins
   if (hist1->GetNbinsX() != hist2->GetNbinsX()) {
      BCLog::OutError("BCEfficiencyFitter::SetHistograms : Histograms do not have the same number of bins.");
      return 0;
   }

   // check compatibility of both histograms : bin content
   for (int i = 1; i <= hist1->GetNbinsX(); ++i)
      if (hist1->GetBinContent(i) < hist2->GetBinContent(i)) {
         BCLog::OutError("BCEfficiencyFitter::SetHistograms : Histogram 1 has fewer entries than histogram 2.");
         return 0;
      }

   // set pointer to histograms
   fHistogram1 = hist1;
   fHistogram2 = hist2;
   
   // create a data set. this is necessary in order to calculate the
   // error band. the data set contains as many data points as there
   // are bins. for now, the data points are empty.
   BCDataSet * ds = new BCDataSet();

   // create data points and add them to the data set.
   int nbins = fHistogram1->GetNbinsX();
   for (int i = 0; i < nbins; ++i) {
      BCDataPoint* dp = new BCDataPoint(2);
      ds->AddDataPoint(dp);
   }

   // set the new data set.
   SetDataSet(ds);

   // calculate the lower and upper edge in x.
   double xmin = hist1->GetBinLowEdge(1);
   double xmax = hist1->GetBinLowEdge(nbins+1);

// // calculate the minimum and maximum range in y.
// double histymin = hist2->GetMinimum();
// double histymax = hist1->GetMaximum();

// // calculate the minimum and maximum of the function value based on
// // the minimum and maximum value in y.
// double ymin = TMath::Max(0., histymin - 5.*sqrt(histymin));
// double ymax = histymax + 5.*sqrt(histymax);

   // set the data boundaries for x and y values.
   SetDataBoundaries(0, xmin, xmax);
   SetDataBoundaries(1, 0.0, 1.0);

   // set the indeces for fitting.
   SetFitFunctionIndices(0, 1);

   // no error
   return 1;
}

// ---------------------------------------------------------

int BCEfficiencyFitter::SetFitFunction(TF1 * func)
{
   // check if function exists
   if(!func) {
      BCLog::OutError("BCEfficiencyFitter::SetFitFunction : TF1 not created.");
      return 0;
   }

   // set the function
   fFitFunction = func;

   // update the model name to contain the function name
   SetName(TString::Format("BCEfficiencyFitter with %s",fFitFunction->GetName()));

   // reset parameters
   fParameterSet->clear();

   // get the new number of parameters
   int n = func->GetNpar();

   // add parameters
   for (int i = 0; i < n; ++i)
   {
      double xmin;
      double xmax;

      func->GetParLimits(i, xmin, xmax);

      AddParameter(func->GetParName(i), xmin, xmax);
   }

   // set flat prior for all parameters by default
   SetPriorConstantAll();

   return GetNParameters();;
}

// ---------------------------------------------------------

BCEfficiencyFitter::~BCEfficiencyFitter()
{
   if (fHistogram1)
      delete fHistogram1;

   if (fHistogram2)
      delete fHistogram2;

   if (fHistogramBinomial)
      delete fHistogramBinomial;
}

// ---------------------------------------------------------

void BCEfficiencyFitter::SetDataPointType(int type)
{
   if(type < 0 || type > 2)
      BCLog::OutError(Form("BCEfficiencyFitter::SetDataPointType : Unknown data point type %d (should be between 0 and 2)."));
   else
      fDataPointType = type;
}

// ---------------------------------------------------------

double BCEfficiencyFitter::LogLikelihood(std::vector <double> params)
{

   // initialize probability
   double loglikelihood = 0;

   // set the parameters of the function
   fFitFunction->SetParameters(&params[0]);

   // get the number of bins
   int nbins = fHistogram1->GetNbinsX();

   // get bin width
   double dx = fHistogram1->GetXaxis()->GetBinWidth(0);

   // loop over all bins
   for (int ibin = 1; ibin <= nbins; ++ibin)
   {
      // get n
      int n = int(fHistogram1->GetBinContent(ibin));

      // get k
      int k = int(fHistogram2->GetBinContent(ibin));

      // get x
      double x = fHistogram1->GetBinCenter(ibin);

      double eff = 0;

      // use ROOT's TH1D::Integral method
      if (fFlagIntegration)
         eff = fFitFunction->Integral(x - dx/2., x + dx/2.) / dx;

      // use linear interpolation
      else
         eff = (fFitFunction->Eval(x + dx/2.) + fFitFunction->Eval(x - dx/2.)) / 2.;

      // get the value of the Poisson distribution
      loglikelihood += BCMath::LogApproxBinomial(n, k, eff);
   }

   return loglikelihood;
}

// ---------------------------------------------------------

double BCEfficiencyFitter::FitFunction(std::vector <double> x, std::vector <double> params)
{
   // set the parameters of the function
   fFitFunction->SetParameters(&params[0]);

   return fFitFunction->Eval(x[0]);
}

// ---------------------------------------------------------

int BCEfficiencyFitter::Fit(TH1D * hist1, TH1D * hist2, TF1 * func)
{
   // set histogram
   if (hist1 && hist2)
      SetHistograms(hist1, hist2);
   else {
      BCLog::OutError("BCEfficiencyFitter::Fit : Histogram(s) not defined.");
      return 0;
   }

   // set function
   if (func)
      SetFitFunction(func);
   else {
      BCLog::OutError("BCEfficiencyFitter::Fit : Fit function not defined.");
      return 0;
   }

   return Fit();
}

// ---------------------------------------------------------

int BCEfficiencyFitter::Fit()
{
   // set histogram
   if (!fHistogram1 || !fHistogram2) {
      BCLog::OutError("BCEfficiencyFitter::Fit : Histogram(s) not defined.");
      return 0;
   }

   // set function
   if (!fFitFunction) {
      BCLog::OutError("BCEfficiencyFitter::Fit : Fit function not defined.");
      return 0;
   }

   // perform marginalization
   MarginalizeAll();

   // maximize posterior probability, using the best-fit values close
   // to the global maximum from the MCMC
   FindModeMinuit( GetBestFitParameters() , -1);

   // calculate the p-value using the fast MCMC algorithm
   double pvalue;
   if ( CalculatePValueFast(GetBestFitParameters(), pvalue) )
      fPValue = pvalue;
   else
      BCLog::OutError("BCEfficiencyFitter::Fit : Could not use the fast p-value evaluation.");

   // print summary to screen
   PrintShortFitSummary();

   // no error
   return 1;
}

// ---------------------------------------------------------

void BCEfficiencyFitter::DrawFit(const char * options, bool flaglegend)
{
   if (!fHistogram1 || !fHistogram2) {
      BCLog::OutError("BCEfficiencyFitter::DrawFit : Histogram(s) not defined.");
      return;
   }

   if (!fFitFunction) {
      BCLog::OutError("BCEfficiencyFitter::DrawFit : Fit function not defined.");
      return;
   }

   // create efficiency graph
   TGraphAsymmErrors * histRatio = new TGraphAsymmErrors();
   histRatio->SetMarkerStyle(20);
   histRatio->SetMarkerSize(1.5);

   int npoints = 0;

   // set points
   for (int i = 1; i <= fHistogram1->GetNbinsX(); ++i)
   {
      if(int(fHistogram1->GetBinContent(i)) == 0) {
         ++npoints;
         continue;
      }

      // calculate central value and uncertainties
      double xexp, xmin, xmax;
      GetUncertainties( int(fHistogram1->GetBinContent(i)), int(fHistogram2->GetBinContent(i)), 0.68, xexp, xmin, xmax);

      histRatio->SetPoint( npoints, fHistogram1->GetBinCenter(i), xexp);

      // no X uncertainties
      histRatio->SetPointEXhigh(npoints, 0.);
      histRatio->SetPointEXlow(npoints, 0.);

      // set Y uncertainties
      histRatio->SetPointEYhigh(npoints, xmax - xexp);
      histRatio->SetPointEYlow(npoints, xexp - xmin);

      ++npoints;
   }


   // check wheather options contain "same"
   TString opt = options;
   opt.ToLower();

   // if not same, draw the histogram first to get the axes
   if(!opt.Contains("same"))
   {
      // create new histogram
      TH2D * hist_axes = new TH2D("hist_axes",
            Form(";%s;ratio", fHistogram1->GetXaxis()->GetTitle()),
            fHistogram1->GetNbinsX(),
            fHistogram1->GetXaxis()->GetBinLowEdge(1),
            fHistogram1->GetXaxis()->GetBinLowEdge(fHistogram1->GetNbinsX()+1),
            1, 0., 1.);
      hist_axes->SetStats(kFALSE);
      hist_axes->Draw();

      histRatio->Draw(TString::Format("%sp",opt.Data()));
   }

   // draw the error band as central 68% probability interval
   fErrorBand = GetErrorBandGraph(0.16, 0.84);
   fErrorBand->Draw("f same");

   // now draw the histogram again since it was covered by the band
   histRatio->SetMarkerSize(.7);
   histRatio->Draw(TString::Format("%ssamep",opt.Data()));

   // draw the fit function on top
   fGraphFitFunction = GetFitFunctionGraph( GetBestFitParameters() );
   fGraphFitFunction->SetLineColor(kRed);
   fGraphFitFunction->SetLineWidth(2);
   fGraphFitFunction->Draw("l same");

   // draw legend
   if (flaglegend)
   {
      TLegend * legend = new TLegend(0.25, 0.75, 0.55, 0.95);
      legend->SetBorderSize(0);
      legend->SetFillColor(kWhite);
      legend->AddEntry(histRatio, "Data", "L");
      legend->AddEntry(fGraphFitFunction, "Best fit", "L");
      legend->AddEntry(fErrorBand, "Error band", "F");
      legend->Draw();
   }
   gPad->RedrawAxis();
}

// ---------------------------------------------------------
int BCEfficiencyFitter::CalculatePValueFast(std::vector<double> par, double &pvalue)
{
   // check size of parameter vector
   if (par.size() != GetNParameters()) {
      BCLog::OutError("BCEfficiencyFitter::CalculatePValueFast : Number of parameters is inconsistent.");
      return 0;
   }

   // check if histogram exists
   if (!fHistogram1 || !fHistogram2) {
      BCLog::OutError("BCEfficiencyFitter::CalculatePValueFast : Histogram not defined.");
      return 0;
   }

   // define temporary variables
   int nbins = fHistogram1->GetNbinsX();

   std::vector <int> histogram;
   std::vector <double> expectation;
   histogram.assign(nbins, 0);
   expectation.assign(nbins, 0);

   double logp = 0;
   double logp_start = 0;
   int counter_pvalue = 0;

   // define starting distribution
   for (int ibin = 0; ibin < nbins; ++ibin) {
      // get bin boundaries
      double xmin = fHistogram1->GetBinLowEdge(ibin+1);
      double xmax = fHistogram1->GetBinLowEdge(ibin+2);

      // get the number of expected events
      double yexp = fFitFunction->Integral(xmin, xmax);

      // get n
      int n = int(fHistogram1->GetBinContent(ibin));

      // get k
      int k = int(fHistogram2->GetBinContent(ibin));

      histogram[ibin]   = k;
      expectation[ibin] = n * yexp;

      // calculate p;
      logp += BCMath::LogApproxBinomial(n, k, yexp);
   }
   logp_start = logp;

   int niter = 100000;

   // loop over iterations
   for (int iiter = 0; iiter < niter; ++iiter)
   {
      // loop over bins
      for (int ibin = 0; ibin < nbins; ++ibin)
      {
         // get n
         int n = int(fHistogram1->GetBinContent(ibin));

         // get k
         int k = histogram.at(ibin);

         // get expectation
         double yexp = 0;
         if (n > 0)
            yexp = expectation.at(ibin)/n;

         // random step up or down in statistics for this bin
         double ptest = fRandom->Rndm() - 0.5;

         // continue, if efficiency is at limit
         if (!(yexp > 0. || yexp < 1.0))
            continue;

         // increase statistics by 1
         if (ptest > 0 && (k < n))
         {
            // calculate factor of probability
            double r = (double(n)-double(k))/(double(k)+1.) * yexp / (1. - yexp);

            // walk, or don't (this is the Metropolis part)
            if (fRandom->Rndm() < r)
            {
               histogram[ibin] = k + 1;
               logp += log(r);
            }
         }

         // decrease statistics by 1
         else if (ptest <= 0 && (k > 0))
         {
            // calculate factor of probability
            double r = double(k) / (double(n)-(double(k)-1)) * (1-yexp)/yexp;

            // walk, or don't (this is the Metropolis part)
            if (fRandom->Rndm() < r)
            {
               histogram[ibin] = k - 1;
               logp += log(r);
            }
         }

      } // end of looping over bins

      // increase counter
      if (logp < logp_start)
         counter_pvalue++;

   } // end of looping over iterations

   // calculate p-value
   pvalue = double(counter_pvalue) / double(niter);

   // no error
   return 1;
}

// ---------------------------------------------------------
int BCEfficiencyFitter::GetUncertainties(int n, int k, double p, double &xexp, double &xmin, double &xmax)
{
   if (n == 0)
   {
      xexp = 0.;
      xmin = 0.;
      xmax = 0.;
      return 0;
   }

   BCLog::OutDebug(Form("Calculating efficiency data-point of type %d for (n,k) = (%d,%d)",fDataPointType,n,k));

   // create a histogram with binomial distribution
   if (fHistogramBinomial)
      fHistogramBinomial->Reset();
   else
      fHistogramBinomial = new TH1D("hist_binomial", "", 1000, 0., 1.);

   // loop over bins and fill histogram
   for (int i = 1; i <= 1000; ++i) {
      double x   = fHistogramBinomial->GetBinCenter(i);
      double val = BCMath::ApproxBinomial(n, k, x);
      fHistogramBinomial->SetBinContent(i, val);
   }

   // normalize
   fHistogramBinomial->Scale(1. / fHistogramBinomial->Integral());

   // calculate central value and uncertainties
   if (fDataPointType == 0) {
      xexp = fHistogramBinomial->GetMean();
      double rms = fHistogramBinomial->GetRMS();
      xmin = xexp-rms;
      xmax = xexp+rms;
      BCLog::OutDebug(Form(" - mean = %f , rms = %f)",xexp,rms));
   }
   else if (fDataPointType == 1) {
      xexp = (double)k/(double)n;
      BCH1D * fbh = new BCH1D((TH1D*)fHistogramBinomial->Clone("hcp"));
      std::vector<double> intervals = fbh->GetSmallestIntervals(p);
      int ninter = intervals.size();
      if ( ninter<2 ) {
         xmin = xmax = xexp = 0.;
      }
      else {
         xmin = intervals[0];
         xmax = intervals[1];
      }
      delete fbh;
   }
   else {
      // calculate quantiles
      int nprobSum = 3;
      double q[3];
      double probSum[3];
      probSum[0] = (1.-p)/2.;
      probSum[1] = 1.-(1.-p)/2.;
      probSum[2] = .5;

      fHistogramBinomial->GetQuantiles(nprobSum, q, probSum);

      xexp = q[2];
      xmin = q[0];
      xmax = q[1];

   }

   BCLog::OutDebug(Form(" - efficiency = %f , range (%f - %f)",xexp,xmin,xmax));

   return 1;
}

// ---------------------------------------------------------