InvariantMixedDiscreteDistribution.h

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//
// File: InvariantMixedDiscreteDistribution.h
// Authors:
//   Julien Dutheil
// Created: 2007-12-24 12:02:00
//
 
/*
  Copyright or © or Copr. Bio++ Development Team, (November 17, 2004)
  
  This software is a computer program whose purpose is to provide classes
  for numerical calculus.
  
  This software is governed by the CeCILL license under French law and
  abiding by the rules of distribution of free software. You can use,
  modify and/ or redistribute the software under the terms of the CeCILL
  license as circulated by CEA, CNRS and INRIA at the following URL
  "http://www.cecill.info".
  
  As a counterpart to the access to the source code and rights to copy,
  modify and redistribute granted by the license, users are provided only
  with a limited warranty and the software's author, the holder of the
  economic rights, and the successive licensors have only limited
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  software by the user in light of its specific status of free software,
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*/
 
#ifndef BPP_NUMERIC_PROB_INVARIANTMIXEDDISCRETEDISTRIBUTION_H
#define BPP_NUMERIC_PROB_INVARIANTMIXEDDISCRETEDISTRIBUTION_H
 
 
#include "AbstractDiscreteDistribution.h"
 
namespace bpp
{
class InvariantMixedDiscreteDistribution :
  public AbstractDiscreteDistribution
{
private:
  DiscreteDistribution* dist_;
  double invariant_, p_;
  std::string nestedPrefix_;
 
public:
  InvariantMixedDiscreteDistribution(DiscreteDistribution* dist, double p, double invariant = 0.);
 
  virtual ~InvariantMixedDiscreteDistribution()
  {
    delete dist_;
  }
 
  InvariantMixedDiscreteDistribution(const InvariantMixedDiscreteDistribution& imdd) :
    AbstractDiscreteDistribution(imdd),
    dist_(dynamic_cast<DiscreteDistribution*>(imdd.dist_->clone())),
    invariant_(imdd.invariant_),
    p_(imdd.p_),
    nestedPrefix_(imdd.nestedPrefix_)
  {}
 
  InvariantMixedDiscreteDistribution& operator=(const InvariantMixedDiscreteDistribution& imdd)
  {
    AbstractDiscreteDistribution::operator=(imdd);
    dist_         = dynamic_cast<DiscreteDistribution*>(imdd.dist_->clone());
    invariant_    = imdd.invariant_;
    p_            = imdd.p_;
    nestedPrefix_ = imdd.nestedPrefix_;
    return *this;
  }
 
  InvariantMixedDiscreteDistribution* clone() const { return new InvariantMixedDiscreteDistribution(*this); }
 
public:
  std::string getName() const {return "Invariant"; }
 
  void fireParameterChanged(const ParameterList& parameters);
 
  void setNamespace(const std::string& prefix);
 
  void setNumberOfCategories(size_t nbClasses)
  {
    dist_->setNumberOfCategories(nbClasses);
    updateDistribution();
  }
 
  const DiscreteDistribution* getVariableSubDistribution() const { return dist_; }
 
  double qProb(double x) const
  {
    return (x >= p_ + (1 - p_) * dist_->pProb(invariant_)) ? dist_->qProb((x - p_) / (1 - p_)) : dist_->qProb(x / (1 - p_));
  }
 
  double pProb(double x) const
  {
    return (1 - p_) * dist_->pProb(x) + (x < invariant_ ? 0 : p_);
  }
 
  double Expectation(double a) const
  {
    return (1 - p_) * dist_->Expectation(a) + (a < invariant_ ? 0 : p_);
  }
 
  void setMedian(bool median)
  {
    if (median_ != median)
    {
      median_ = median;
      dist_->setMedian(median);
      updateDistribution();
    }
  }
 
  void discretize()
  {
    dist_->discretize();
    updateDistribution();
  }
 
  void restrictToConstraint(const Constraint& c);
 
protected:
  void updateDistribution();
};
} // end of namespace bpp.
#endif // BPP_NUMERIC_PROB_INVARIANTMIXEDDISCRETEDISTRIBUTION_H