Partial implementation of the DiscreteDistribution interface. More...

#include <Bpp/Numeric/Prob/AbstractDiscreteDistribution.h>

Inheritance diagram for bpp::AbstractDiscreteDistribution:

Collaboration diagram for bpp::AbstractDiscreteDistribution:

Classes
class	Order
	Comparator class for AbstractDiscreteDistribution. More...
Public Member Functions
	AbstractDiscreteDistribution (size_t nbClasses, const std::string &prefix="")
	AbstractDiscreteDistribution (size_t nbClasses, double precision, const std::string &prefix="")
	AbstractDiscreteDistribution (const AbstractDiscreteDistribution &adde)
AbstractDiscreteDistribution &	operator= (const AbstractDiscreteDistribution &adde)
virtual	~AbstractDiscreteDistribution ()
virtual void	restrictToConstraint (const Constraint &c)
	Restricts the distribution to the domain where the constraint is respected, in addition of other predefined constraints.
DiscreteDistribution *	clone () const =0
	Create a copy of this object and send a pointer to it.
virtual std::string	getName () const =0
	Get the name of the distribution.
virtual double	qProb (double x) const =0
	Return the quantile of the continuous version of the distribution, ie y such that .
virtual double	pProb (double x) const =0
	Return the cumulative quantile of the continuous version of the distribution, ie .
virtual double	Expectation (double a) const =0
	Return a primitive function used for the expectation of the continuous version of the distribution, ie $E(X\|...<=X<a) = \int_{...}^a t.dProb(t) dt$ .
virtual size_t	getNumberOfIndependentParameters () const =0
	Get the number of independent parameters.
virtual void	aliasParameters (const std::string &p1, const std::string &p2)=0 throw (ParameterNotFoundException, Exception)
	Set two parameters as 'aliased'.
virtual void	unaliasParameters (const std::string &p1, const std::string &p2)=0 throw (ParameterNotFoundException, Exception)
	Detach two parameters previously set as 'aliased'.
virtual const ParameterList &	getIndependentParameters () const =0
	Get the minimal list of parameters to set the model.
virtual std::vector< std::string >	getAlias (const std::string &name) const =0
virtual bool	hasParameter (const std::string &name) const =0
	Tell if there is a parameter with specified name.
virtual const ParameterList &	getParameters () const =0
	Get all parameters available.
virtual const Parameter &	getParameter (const std::string &name) const =0 throw (ParameterNotFoundException)
	Get the parameter with specified name.
virtual double	getParameterValue (const std::string &name) const =0 throw (ParameterNotFoundException)
	Get the value for parameter of name 'name'.
virtual void	setAllParametersValues (const ParameterList &parameters)=0 throw (ParameterNotFoundException, ConstraintException)
	Set the parameters values to be equals to those of parameters.
virtual void	setParameterValue (const std::string &name, double value)=0 throw (ParameterNotFoundException, ConstraintException)
	Set the value of parameter with name name to be equal to value.
virtual void	setParametersValues (const ParameterList &parameters)=0 throw (ParameterNotFoundException, ConstraintException)
	Update the parameters from parameters.
virtual bool	matchParametersValues (const ParameterList &parameters)=0 throw (ConstraintException)
	Update the parameters from parameters.
virtual size_t	getNumberOfParameters () const =0
	Get the number of parameters.
virtual void	setNamespace (const std::string &prefix)=0
	Set the namespace for the parameter names.
virtual std::string	getNamespace () const =0
virtual std::string	getParameterNameWithoutNamespace (const std::string &name) const =0
	Resolves a parameter name according to the current namespace.
void	setNamespace (const std::string &prefix)
	Set the namespace for the parameter names.
const ParameterList &	getIndependentParameters () const
	Get the minimal list of parameters to set the model.
size_t	getNumberOfIndependentParameters () const
	Get the number of independent parameters.
void	aliasParameters (const std::string &p1, const std::string &p2) throw (ParameterNotFoundException, Exception)
	Set two parameters as 'aliased'.
void	unaliasParameters (const std::string &p1, const std::string &p2) throw (ParameterNotFoundException, Exception)
	Detach two parameters previously set as 'aliased'.
std::vector< std::string >	getAlias (const std::string &name) const
std::string	getFrom (const std::string &name) const
void	fireParameterChanged (const ParameterList &parameters)
	Notify the class when one or several parameters have changed.
bool	hasParameter (const std::string &name) const
	Tell if there is a parameter with specified name.
const ParameterList &	getParameters () const
	Get all parameters available.
const Parameter &	getParameter (const std::string &name) const throw (ParameterNotFoundException)
	Get the parameter with specified name.
double	getParameterValue (const std::string &name) const throw (ParameterNotFoundException)
	Get the value for parameter of name 'name'.
void	setAllParametersValues (const ParameterList &parameters) throw (ParameterNotFoundException, ConstraintException)
	Set the parameters values to be equals to those of parameters.
void	setParameterValue (const std::string &name, double value) throw (ParameterNotFoundException, ConstraintException)
	Set the value of parameter with name name to be equal to value.
void	setParametersValues (const ParameterList &parameters) throw (ParameterNotFoundException, ConstraintException)
	Update the parameters from parameters.
bool	matchParametersValues (const ParameterList &parameters) throw (ConstraintException)
	Update the parameters from parameters.
size_t	getNumberOfParameters () const
	Get the number of parameters.
std::string	getNamespace () const
std::string	getParameterNameWithoutNamespace (const std::string &name) const
	Resolves a parameter name according to the current namespace.
The DiscreteDistribution interface.
size_t	getNumberOfCategories () const
void	setNumberOfCategories (size_t nbClasses)
	sets the number of categories and discretizes if there is a change in this number.
double	getCategory (size_t categoryIndex) const
double	getProbability (size_t categoryIndex) const
double	getProbability (double category) const
Vdouble	getCategories () const
Vdouble	getProbabilities () const
double	getValueCategory (double value) const
void	set (double category, double probability)
	Set the probability associated to a class.
void	add (double category, double probability)
	Modify the probability associated to a class.
double	getInfCumulativeProbability (double category) const
double	getIInfCumulativeProbability (double category) const
double	getSupCumulativeProbability (double category) const
double	getSSupCumulativeProbability (double category) const
double	rand () const
	Draw a random number from this distribution.
double	randC () const throw (Exception)
	Draw a random number from the continuous version of this distribution, if it exists.
double	getBound (size_t i) const throw (IndexOutOfBoundsException)
double	getLowerBound () const
	methods about the range of the definition
double	getUpperBound () const
bool	strictLowerBound () const
bool	strictUpperBound () const
Vdouble	getBounds () const
void	print (OutputStream &out) const
	Print the distribution (categories and corresponding probabilities) to a stream.
double	precision () const
void	setMedian (bool median)
	Sets the median value to true to say that the value in a class is proportional to the median value of the class, the proportionality factor being such that the sum of the values equals the expectation of the distribution. If it is set to false, the value is the mean value in the class.
virtual void	discretize ()
	Discretizes the distribution in equiprobable classes.
Protected Member Functions
void	addParameter_ (Parameter *parameter)
void	addParameters_ (const ParameterList &parameters)
void	deleteParameter_ (size_t index) throw (IndexOutOfBoundsException)
void	resetParameters_ ()
Parameter &	getParameter_ (const std::string &name) throw (ParameterNotFoundException)
Parameter &	getParameter_ (size_t index) throw (IndexOutOfBoundsException)
const Parameter &	getParameter_ (size_t index) const throw (IndexOutOfBoundsException)
Parameter &	getParameterWithNamespace_ (const std::string &name) throw (ParameterNotFoundException)
const Parameter &	getParameterWithNamespace_ (const std::string &name) const throw (ParameterNotFoundException)
ParameterList &	getParameters_ ()
Protected Attributes
size_t	numberOfCategories_
std::map< double, double, Order >	distribution_
std::vector< double >	bounds_
IntervalConstraint	intMinMax_
	the interval where the distribution is defined/restricted.
bool	median_

Detailed Description

Partial implementation of the DiscreteDistribution interface.

This class uses a map to store the cateogry values as keys and probabilities as values. It uses its own comparator class to deal with double precision. By default, category values that differ less than 10E-9 will be considered identical.

Definition at line 59 of file AbstractDiscreteDistribution.h.

Constructor & Destructor Documentation

AbstractDiscreteDistribution::AbstractDiscreteDistribution	(	size_t	nbClasses,
		const std::string &	prefix = `""`
	)

Definition at line 49 of file AbstractDiscreteDistribution.cpp.

AbstractDiscreteDistribution::AbstractDiscreteDistribution	(	size_t	nbClasses,
		double	precision,
		const std::string &	prefix = `""`
	)

With additional precision value to discriminate categories (default 1e-12)

Definition at line 58 of file AbstractDiscreteDistribution.cpp.

AbstractDiscreteDistribution::AbstractDiscreteDistribution ( const AbstractDiscreteDistribution & adde )

Definition at line 67 of file AbstractDiscreteDistribution.cpp.

virtual bpp::AbstractDiscreteDistribution::~AbstractDiscreteDistribution ( ) [inline, virtual]

Definition at line 146 of file AbstractDiscreteDistribution.h.

Member Function Documentation

void AbstractDiscreteDistribution::add	(	double	category,
		double	probability
	)		`[virtual]`

Modify the probability associated to a class.

If the category does not exist, a new category is created with the corresponding probability. if the category exists, add 'probability' to the existing probability. The sum of all probabilities is not checked.

Parameters:

category	The class value.
probability	The class probability.

Implements bpp::DiscreteDistribution.

Definition at line 181 of file AbstractDiscreteDistribution.cpp.

References distribution_.

void bpp::AbstractParameterAliasable::addParameter_ ( Parameter * parameter ) [inline, protected, inherited]

Reimplemented from bpp::AbstractParametrizable.

Definition at line 189 of file AbstractParameterAliasable.h.

References bpp::ParameterList::addParameter(), bpp::Parameter::clone(), and bpp::AbstractParameterAliasable::independentParameters_.

void bpp::AbstractParameterAliasable::addParameters_ ( const ParameterList & parameters ) [inline, protected, inherited]

Reimplemented from bpp::AbstractParametrizable.

Definition at line 195 of file AbstractParameterAliasable.h.

References bpp::ParameterList::addParameters(), and bpp::AbstractParameterAliasable::independentParameters_.

Referenced by bpp::InvariantMixedDiscreteDistribution::InvariantMixedDiscreteDistribution(), and bpp::MixtureOfDiscreteDistributions::MixtureOfDiscreteDistributions().

virtual void bpp::ParameterAliasable::aliasParameters	(	const std::string &	p1,
		const std::string &	p2
	)		throw (ParameterNotFoundException, Exception) `[pure virtual, inherited]`

Set two parameters as 'aliased'.

The values of the two parameters will be synchronized, so that setting the value of one parameter will automatically set the value of the other one accordingly.

Parameters:

p1	Original parameter.
p2	Aliased parameter.

Exceptions:

ParameterNotFoundException	if p1 or p2 do not correspond to existing parameters.
Exception	when trying to perform non-valid association.

Implemented in bpp::AbstractParameterAliasable.

void AbstractParameterAliasable::aliasParameters	(	const std::string &	p1,
		const std::string &	p2
	)		throw (ParameterNotFoundException, Exception) `[virtual, inherited]`

Set two parameters as 'aliased'.

The values of the two parameters will be synchronized, so that setting the value of one parameter will automatically set the value of the other one accordingly.

Parameters:

p1	Original parameter.
p2	Aliased parameter.

Exceptions:

ParameterNotFoundException	if p1 or p2 do not correspond to existing parameters.
Exception	when trying to perform non-valid association.

Implements bpp::ParameterAliasable.

Definition at line 103 of file AbstractParameterAliasable.cpp.

References bpp::Parameter::addParameterListener(), bpp::Parameter::getConstraint(), bpp::Constraint::getDescription(), and bpp::Parameter::hasConstraint().

DiscreteDistribution* bpp::DiscreteDistribution::clone ( ) const [pure virtual, inherited]

Create a copy of this object and send a pointer to it.

Returns:: A pointer toward the copy object.

Implements bpp::Clonable.

Implemented in bpp::SimpleDiscreteDistribution, bpp::TruncatedExponentialDiscreteDistribution, bpp::MixtureOfDiscreteDistributions, bpp::InvariantMixedDiscreteDistribution, bpp::GammaDiscreteDistribution, bpp::BetaDiscreteDistribution, bpp::ExponentialDiscreteDistribution, bpp::GaussianDiscreteDistribution, bpp::UniformDiscreteDistribution, and bpp::ConstantDistribution.

Referenced by bpp::InvariantMixedDiscreteDistribution::operator=().

void bpp::AbstractParameterAliasable::deleteParameter_ ( size_t index ) throw (IndexOutOfBoundsException) [inline, protected, inherited]

Reimplemented from bpp::AbstractParametrizable.

Definition at line 201 of file AbstractParameterAliasable.h.

References bpp::ParameterList::deleteParameter(), bpp::Parameter::getName(), bpp::AbstractParametrizable::getParameter_(), bpp::ParameterList::hasParameter(), and bpp::AbstractParameterAliasable::independentParameters_.

void AbstractDiscreteDistribution::discretize ( ) [virtual]

Discretizes the distribution in equiprobable classes.

Implements bpp::DiscreteDistribution.

Reimplemented in bpp::MixtureOfDiscreteDistributions, bpp::InvariantMixedDiscreteDistribution, bpp::SimpleDiscreteDistribution, and bpp::ConstantDistribution.

Definition at line 307 of file AbstractDiscreteDistribution.cpp.

References bounds_, distribution_, bpp::DiscreteDistribution::Expectation(), bpp::IntervalConstraint::getLowerBound(), bpp::IntervalConstraint::getUpperBound(), intMinMax_, median_, numberOfCategories_, bpp::DiscreteDistribution::pProb(), precision(), bpp::DiscreteDistribution::qProb(), bpp::IntervalConstraint::strictLowerBound(), bpp::IntervalConstraint::strictUpperBound(), and bpp::NumConstants::TINY().

virtual double bpp::DiscreteDistribution::Expectation ( double a ) const [pure virtual, inherited]

Return a primitive function used for the expectation of the continuous version of the distribution, ie $E(X|...<=X<a) = \int_{...}^a t.dProb(t) dt$ .

Implemented in bpp::MixtureOfDiscreteDistributions, bpp::SimpleDiscreteDistribution, bpp::TruncatedExponentialDiscreteDistribution, bpp::InvariantMixedDiscreteDistribution, bpp::ExponentialDiscreteDistribution, bpp::BetaDiscreteDistribution, bpp::GammaDiscreteDistribution, bpp::UniformDiscreteDistribution, bpp::GaussianDiscreteDistribution, and bpp::ConstantDistribution.

Referenced by discretize(), and bpp::InvariantMixedDiscreteDistribution::Expectation().

void bpp::AbstractParameterAliasable::fireParameterChanged ( const ParameterList & parameters ) [inline, virtual, inherited]

Notify the class when one or several parameters have changed.

Parameters:

parameters A ParameterList object with parameters that changed.

Implements bpp::AbstractParametrizable.

Reimplemented in bpp::Simplex, bpp::MixtureOfDiscreteDistributions, bpp::SimpleDiscreteDistribution, bpp::DirichletDiscreteDistribution, bpp::TruncatedExponentialDiscreteDistribution, bpp::InvariantMixedDiscreteDistribution, bpp::BetaDiscreteDistribution, bpp::ExponentialDiscreteDistribution, bpp::GammaDiscreteDistribution, bpp::GaussianDiscreteDistribution, bpp::UniformDiscreteDistribution, and bpp::ConstantDistribution.

Definition at line 183 of file AbstractParameterAliasable.h.

References bpp::AbstractParametrizable::getParameters(), bpp::AbstractParameterAliasable::independentParameters_, and bpp::ParameterList::matchParametersValues().

virtual std::vector<std::string> bpp::ParameterAliasable::getAlias ( const std::string & name ) const [pure virtual, inherited]

Returns:: The list of names of the parameters that are aliased with a given parameter. Depending on the implementation, the function may be recursive or not...

Parameters:

name	The name of the parameter to look for.

Implemented in bpp::AbstractParameterAliasable.

Referenced by bpp::BppOParametrizableFormat::write().

vector< string > AbstractParameterAliasable::getAlias ( const std::string & name ) const [virtual, inherited]

Returns:: The list of names of the parameters that are aliased with a given parameter. The implementation is recursive, which means that in the case of A->B->C, getalias(C) will return both A and B.

Parameters:

name	The name of the parameter to look for.

Implements bpp::ParameterAliasable.

Definition at line 198 of file AbstractParameterAliasable.cpp.

References bpp::AbstractParameterAliasable::aliasListenersRegister_, and bpp::VectorTools::append().

double bpp::AbstractDiscreteDistribution::getBound ( size_t ) const throw (IndexOutOfBoundsException) [inline, virtual]

Returns:: the i th internal bound

Implements bpp::DiscreteDistribution.

Definition at line 178 of file AbstractDiscreteDistribution.h.

References bounds_, and numberOfCategories_.

Referenced by getBounds().

Vdouble AbstractDiscreteDistribution::getBounds ( ) const [virtual]

Returns:: A vector of all the bounds

Implements bpp::DiscreteDistribution.

Definition at line 444 of file AbstractDiscreteDistribution.cpp.

References getBound(), getLowerBound(), getUpperBound(), and numberOfCategories_.

Vdouble AbstractDiscreteDistribution::getCategories ( ) const [virtual]

Returns:: A vector with all classes values.

Implements bpp::DiscreteDistribution.

Definition at line 142 of file AbstractDiscreteDistribution.cpp.

References distribution_.

double AbstractDiscreteDistribution::getCategory ( size_t categoryIndex ) const [virtual]

Parameters:

categoryIndex Class index.

Returns:: The value associated to a given class.

Implements bpp::DiscreteDistribution.

Definition at line 111 of file AbstractDiscreteDistribution.cpp.

References distribution_.

Referenced by bpp::BppODiscreteDistributionFormat::write().

string AbstractParameterAliasable::getFrom ( const std::string & name ) const [inherited]

Returns:: The names of the parameter from which a given parameter is aliased.

Parameters:

name	The name of the parameter to look for.

Definition at line 219 of file AbstractParameterAliasable.cpp.

References bpp::AbstractParameterAliasable::aliasListenersRegister_.

double AbstractDiscreteDistribution::getIInfCumulativeProbability ( double category ) const [virtual]

Returns:: $Pr(x \leq \mbox{category})$ .

Parameters:

category The class value.

Implements bpp::DiscreteDistribution.

Definition at line 230 of file AbstractDiscreteDistribution.cpp.

References distribution_.

virtual const ParameterList& bpp::ParameterAliasable::getIndependentParameters ( ) const [pure virtual, inherited]

Get the minimal list of parameters to set the model.

If no parameters are aliased, this is the same a getParameters().

Returns:: A minimal set of parameters.

Implemented in bpp::AbstractParameterAliasable.

Referenced by bpp::InvariantMixedDiscreteDistribution::InvariantMixedDiscreteDistribution(), bpp::BppODiscreteDistributionFormat::write(), and bpp::BppOParametrizableFormat::write().

const ParameterList& bpp::AbstractParameterAliasable::getIndependentParameters ( ) const [inline, virtual, inherited]

Get the minimal list of parameters to set the model.

If no parameters are aliased, this is the same a getParameters().

Returns:: A minimal set of parameters.

Implements bpp::ParameterAliasable.

Definition at line 162 of file AbstractParameterAliasable.h.

References bpp::AbstractParameterAliasable::independentParameters_.

double AbstractDiscreteDistribution::getInfCumulativeProbability ( double category ) const [virtual]

Returns:: $Pr(x < \mbox{category})$ .

Parameters:

category The class value.

Implements bpp::DiscreteDistribution.

Definition at line 215 of file AbstractDiscreteDistribution.cpp.

References distribution_.

double bpp::AbstractDiscreteDistribution::getLowerBound ( ) const [inline, virtual]

methods about the range of the definition

Returns:: The lowest value.

Reimplemented from bpp::DiscreteDistribution.

Reimplemented in bpp::SimpleDiscreteDistribution, and bpp::ConstantDistribution.

Definition at line 192 of file AbstractDiscreteDistribution.h.

References bpp::IntervalConstraint::getLowerBound(), and intMinMax_.

Referenced by getBounds(), and bpp::MixtureOfDiscreteDistributions::updateDistribution().

virtual std::string bpp::DiscreteDistribution::getName ( ) const [pure virtual, inherited]

Get the name of the distribution.

Returns:: The name of this distribution.

Implemented in bpp::SimpleDiscreteDistribution, bpp::TruncatedExponentialDiscreteDistribution, bpp::MixtureOfDiscreteDistributions, bpp::InvariantMixedDiscreteDistribution, bpp::BetaDiscreteDistribution, bpp::ExponentialDiscreteDistribution, bpp::ConstantDistribution, bpp::GaussianDiscreteDistribution, bpp::UniformDiscreteDistribution, and bpp::GammaDiscreteDistribution.

Referenced by bpp::BppODiscreteDistributionFormat::write().

std::string bpp::AbstractParametrizable::getNamespace ( ) const [inline, virtual, inherited]

Returns:: The current namespace used. This is an empty string if no namespace is currently defined.

Implements bpp::Parametrizable.

Definition at line 124 of file AbstractParametrizable.h.

References bpp::AbstractParametrizable::prefix_.

Referenced by bpp::MixtureOfDiscreteDistributions::MixtureOfDiscreteDistributions(), bpp::Simplex::setFrequencies(), bpp::AbstractParameterAliasable::setNamespace(), and bpp::BppODiscreteDistributionFormat::write().

virtual std::string bpp::Parametrizable::getNamespace ( ) const [pure virtual, inherited]

Returns:: The current namespace used. This is an empty string if no namespace is currently defined.

Implemented in bpp::FunctionWrapper, bpp::ParametrizableAdapter, and bpp::AbstractParametrizable.

Referenced by bpp::FunctionWrapper::getNamespace().

size_t AbstractDiscreteDistribution::getNumberOfCategories ( ) const [virtual]

Returns:: The number of categories.

Implements bpp::DiscreteDistribution.

Definition at line 91 of file AbstractDiscreteDistribution.cpp.

References numberOfCategories_.

Referenced by bpp::BppODiscreteDistributionFormat::write().

virtual size_t bpp::ParameterAliasable::getNumberOfIndependentParameters ( ) const [pure virtual, inherited]

Get the number of independent parameters.

Returns:: The number of independent parameters. If no parameters are aliased, this is equivalent to the getNumberOfParameters() method.

Implemented in bpp::AbstractParameterAliasable.

size_t bpp::AbstractParameterAliasable::getNumberOfIndependentParameters ( ) const [inline, virtual, inherited]

Get the number of independent parameters.

Returns:: The number of independent parameters. If no parameters are aliased, this is equivalent to the getNumberOfParameters() method.

Implements bpp::ParameterAliasable.

Definition at line 164 of file AbstractParameterAliasable.h.

References bpp::AbstractParameterAliasable::independentParameters_, and bpp::ParameterList::size().

size_t bpp::AbstractParametrizable::getNumberOfParameters ( ) const [inline, virtual, inherited]

Get the number of parameters.

See also:: getNumberOfIndependentParameters If some parameters are aliased.

Returns:: The number of parameters.

Implements bpp::Parametrizable.

Definition at line 120 of file AbstractParametrizable.h.

References bpp::AbstractParametrizable::parameters_, and bpp::ParameterList::size().

Referenced by bpp::AbstractParameterAliasable::AbstractParameterAliasable(), bpp::SimpleDiscreteDistribution::fireParameterChanged(), bpp::AbstractParameterAliasable::operator=(), bpp::ConstantDistribution::restrictToConstraint(), and bpp::SimpleDiscreteDistribution::restrictToConstraint().

virtual size_t bpp::Parametrizable::getNumberOfParameters ( ) const [pure virtual, inherited]

Get the number of parameters.

See also:: getNumberOfIndependentParameters If some parameters are aliased.

Returns:: The number of parameters.

Implemented in bpp::FunctionWrapper, bpp::ParametrizableAdapter, bpp::AbstractParametrizable, and bpp::DirectionFunction.

Referenced by bpp::FunctionWrapper::getNumberOfParameters(), and bpp::BppODiscreteDistributionFormat::write().

const Parameter& bpp::AbstractParametrizable::getParameter ( const std::string & name ) const throw (ParameterNotFoundException) [inline, virtual, inherited]

Get the parameter with specified name.

Parameters:

name	The name of the parameter to look for.

Returns:: The parameter with given name.

Exceptions:

ParameterNotFoundException if no parameter with this name is found.

Implements bpp::Parametrizable.

Definition at line 79 of file AbstractParametrizable.h.

References bpp::ParameterList::getParameter(), bpp::AbstractParametrizable::parameters_, and bpp::AbstractParametrizable::prefix_.

Referenced by bpp::ReparametrizationDerivableFirstOrderWrapper::getFirstOrderDerivative(), bpp::AbstractParametrizable::getParameterValue(), bpp::AbstractParametrizable::getParameterWithNamespace_(), bpp::ReparametrizationDerivableSecondOrderWrapper::getSecondOrderDerivative(), and bpp::TestFunction::getValue().

virtual const Parameter& bpp::Parametrizable::getParameter ( const std::string & name ) const throw (ParameterNotFoundException) [pure virtual, inherited]

Get the parameter with specified name.

Parameters:

name	The name of the parameter to look for.

Returns:: The parameter with given name.

Exceptions:

ParameterNotFoundException if no parameter with this name is found.

Implemented in bpp::FunctionWrapper, bpp::ParametrizableAdapter, and bpp::AbstractParametrizable.

Referenced by bpp::FunctionWrapper::getParameter().

Parameter& bpp::AbstractParametrizable::getParameter_ ( const std::string & name ) throw (ParameterNotFoundException) [inline, protected, inherited]

Parameters:

name	The name of the parameter.

Returns:: A reference toward the corresponding parameter.

Exceptions:

ParameterNotFoundException If no parameter with that name is found in the list.

Definition at line 164 of file AbstractParametrizable.h.

References bpp::ParameterList::getParameter(), bpp::AbstractParametrizable::parameters_, and bpp::AbstractParametrizable::prefix_.

Referenced by bpp::AbstractParameterAliasable::deleteParameter_(), bpp::AbstractParametrizable::getParameterWithNamespace_(), bpp::ConstantDistribution::restrictToConstraint(), bpp::TruncatedExponentialDiscreteDistribution::restrictToConstraint(), bpp::InvariantMixedDiscreteDistribution::restrictToConstraint(), and bpp::SimpleDiscreteDistribution::restrictToConstraint().

Parameter& bpp::AbstractParametrizable::getParameter_ ( size_t index ) throw (IndexOutOfBoundsException) [inline, protected, inherited]

Definition at line 188 of file AbstractParametrizable.h.

References bpp::AbstractParametrizable::parameters_, and bpp::ParameterList::size().

const Parameter& bpp::AbstractParametrizable::getParameter_ ( size_t index ) const throw (IndexOutOfBoundsException) [inline, protected, inherited]

Definition at line 194 of file AbstractParametrizable.h.

References bpp::AbstractParametrizable::parameters_, and bpp::ParameterList::size().

std::string AbstractParametrizable::getParameterNameWithoutNamespace ( const std::string & name ) const [virtual, inherited]

Resolves a parameter name according to the current namespace.

Returns:: The parameter name without the namespace prefix, if any.

Implements bpp::Parametrizable.

Definition at line 63 of file AbstractParametrizable.cpp.

References bpp::TextTools::startsWith().

virtual std::string bpp::Parametrizable::getParameterNameWithoutNamespace ( const std::string & name ) const [pure virtual, inherited]

Resolves a parameter name according to the current namespace.

Returns:: The parameter name without the namespace prefix, if any.

Implemented in bpp::FunctionWrapper, bpp::ParametrizableAdapter, and bpp::AbstractParametrizable.

Referenced by bpp::FunctionWrapper::getParameterNameWithoutNamespace(), bpp::BppODiscreteDistributionFormat::read(), and bpp::BppOParametrizableFormat::write().

const ParameterList& bpp::AbstractParametrizable::getParameters ( ) const [inline, virtual, inherited]

Get all parameters available.

See also:: getIndependentParameters if some parameters are aliased.

Returns:: A list with all parameters available.

Implements bpp::Parametrizable.

Definition at line 77 of file AbstractParametrizable.h.

References bpp::AbstractParametrizable::parameters_.

Referenced by bpp::AbstractParameterAliasable::fireParameterChanged(), and bpp::MixtureOfDiscreteDistributions::MixtureOfDiscreteDistributions().

virtual const ParameterList& bpp::Parametrizable::getParameters ( ) const [pure virtual, inherited]

Get all parameters available.

See also:: getIndependentParameters if some parameters are aliased.

Returns:: A list with all parameters available.

Implemented in bpp::FunctionWrapper, bpp::ParametrizableAdapter, bpp::DirectionFunction, and bpp::AbstractParametrizable.

Referenced by bpp::NewtonOneDimension::doStep(), bpp::FunctionWrapper::getParameters(), bpp::BppODiscreteDistributionFormat::read(), bpp::AbstractNumericalDerivative::setParameterValue(), bpp::AbstractOptimizer::step(), and bpp::BppOParametrizableFormat::write().

ParameterList& bpp::AbstractParametrizable::getParameters_ ( ) [inline, protected, inherited]

Definition at line 201 of file AbstractParametrizable.h.

References bpp::AbstractParametrizable::parameters_.

Referenced by bpp::AbstractParameterAliasable::AbstractParameterAliasable(), and bpp::AbstractParameterAliasable::operator=().

double bpp::AbstractParametrizable::getParameterValue ( const std::string & name ) const throw (ParameterNotFoundException) [inline, virtual, inherited]

Get the value for parameter of name 'name'.

Parameters:

name	The name of the parameter.

Returns:: the value of parameter name.

Implements bpp::Parametrizable.

Definition at line 84 of file AbstractParametrizable.h.

References bpp::AbstractParametrizable::getParameter(), and bpp::Parameter::getValue().

virtual double bpp::Parametrizable::getParameterValue ( const std::string & name ) const throw (ParameterNotFoundException) [pure virtual, inherited]

Get the value for parameter of name 'name'.

Parameters:

name	The name of the parameter.

Returns:: the value of parameter name.

Implemented in bpp::FunctionWrapper, bpp::ParametrizableAdapter, and bpp::AbstractParametrizable.

Referenced by bpp::FunctionWrapper::getParameterValue(), and bpp::BppODiscreteDistributionFormat::read().

Parameter& bpp::AbstractParametrizable::getParameterWithNamespace_ ( const std::string & name ) throw (ParameterNotFoundException) [inline, protected, inherited]

Parameters:

name	The name of the parameter, including its namespace.

Returns:: A reference toward the corresponding parameter.

Exceptions:

ParameterNotFoundException If no parameter with that name is found in the list.

Definition at line 174 of file AbstractParametrizable.h.

References bpp::AbstractParametrizable::getParameter_().

const Parameter& bpp::AbstractParametrizable::getParameterWithNamespace_ ( const std::string & name ) const throw (ParameterNotFoundException) [inline, protected, inherited]

Parameters:

name	The name of the parameter, including its namespace.

Returns:: A reference toward the corresponding parameter.

Exceptions:

ParameterNotFoundException If no parameter with that name is found in the list.

Definition at line 183 of file AbstractParametrizable.h.

References bpp::AbstractParametrizable::getParameter().

Vdouble AbstractDiscreteDistribution::getProbabilities ( ) const [virtual]

Returns:: A vector with all probabilities.

Implements bpp::DiscreteDistribution.

Definition at line 158 of file AbstractDiscreteDistribution.cpp.

References distribution_.

double AbstractDiscreteDistribution::getProbability ( size_t categoryIndex ) const [virtual]

Parameters:

categoryIndex Class index.

Returns:: The probability associated to a given class.

Implements bpp::DiscreteDistribution.

Definition at line 123 of file AbstractDiscreteDistribution.cpp.

References distribution_.

Referenced by bpp::BppODiscreteDistributionFormat::write().

double AbstractDiscreteDistribution::getProbability ( double category ) const [virtual]

Parameters:

category The value associated to the class.

Returns:: The probability associated to a given class.

Implements bpp::DiscreteDistribution.

Definition at line 135 of file AbstractDiscreteDistribution.cpp.

References distribution_.

double AbstractDiscreteDistribution::getSSupCumulativeProbability ( double category ) const [virtual]

Returns:: $Pr(x \geq \mbox{category})$ .

Parameters:

category The class value.

Implements bpp::DiscreteDistribution.

Definition at line 264 of file AbstractDiscreteDistribution.cpp.

References distribution_.

double AbstractDiscreteDistribution::getSupCumulativeProbability ( double category ) const [virtual]

Returns:: $Pr(x > \mbox{category})$ .

Parameters:

category The class value.

Implements bpp::DiscreteDistribution.

Definition at line 247 of file AbstractDiscreteDistribution.cpp.

References distribution_.

double bpp::AbstractDiscreteDistribution::getUpperBound ( ) const [inline, virtual]

Returns:: The highest value.

Reimplemented from bpp::DiscreteDistribution.

Reimplemented in bpp::SimpleDiscreteDistribution, and bpp::ConstantDistribution.

Definition at line 197 of file AbstractDiscreteDistribution.h.

References bpp::IntervalConstraint::getUpperBound(), and intMinMax_.

Referenced by getBounds(), and bpp::MixtureOfDiscreteDistributions::updateDistribution().

double AbstractDiscreteDistribution::getValueCategory ( double value ) const [virtual]

Parameters:

value

Returns:: The value of the category the value is in. Throws a OutOfRangeException if the value is off the domain of the DiscreteDistribution.

Implements bpp::DiscreteDistribution.

Definition at line 289 of file AbstractDiscreteDistribution.cpp.

References bounds_, distribution_, intMinMax_, bpp::IntervalConstraint::isCorrect(), and bpp::TextTools::toString().

virtual bool bpp::Parametrizable::hasParameter ( const std::string & name ) const [pure virtual, inherited]

Tell if there is a parameter with specified name.

Parameters:

name	The name of the parameter to look for.

Returns:: y/n.

Implemented in bpp::FunctionWrapper, bpp::ParametrizableAdapter, and bpp::AbstractParametrizable.

Referenced by bpp::FunctionWrapper::hasParameter().

bool bpp::AbstractParametrizable::hasParameter ( const std::string & name ) const [inline, virtual, inherited]

Tell if there is a parameter with specified name.

Parameters:

name	The name of the parameter to look for.

Returns:: y/n.

Implements bpp::Parametrizable.

Definition at line 75 of file AbstractParametrizable.h.

References bpp::ParameterList::hasParameter(), bpp::AbstractParametrizable::parameters_, and bpp::AbstractParametrizable::prefix_.

Referenced by bpp::ConstantDistribution::fireParameterChanged().

bool bpp::AbstractParametrizable::matchParametersValues ( const ParameterList & parameters ) throw (ConstraintException) [inline, virtual, inherited]

Update the parameters from parameters.

Only common parameters with parameters will be updated.

Parameters:

parameters A list of parameters.

Returns:: True if at least one parameter value has been changed.

Exceptions:

ConstraintException If a value in parameters does not match the constraint in the corresponding parameter in the list.

Implements bpp::Parametrizable.

Definition at line 111 of file AbstractParametrizable.h.

References bpp::AbstractParametrizable::fireParameterChanged(), bpp::ParameterList::matchParametersValues(), and bpp::AbstractParametrizable::parameters_.

Referenced by bpp::Simplex::setFrequencies(), bpp::ReparametrizationFunctionWrapper::setParameters(), and bpp::TestFunction::setParameters().

virtual bool bpp::Parametrizable::matchParametersValues ( const ParameterList & parameters ) throw (ConstraintException) [pure virtual, inherited]

Update the parameters from parameters.

Only common parameters with parameters will be updated.

Parameters:

parameters A list of parameters.

Returns:: True if at least one parameter value has been changed.

Exceptions:

ConstraintException If a value in parameters does not match the constraint in the corresponding parameter in the list.

Implemented in bpp::InfinityFunctionWrapper, bpp::FunctionWrapper, bpp::AbstractNumericalDerivative, bpp::ParametrizableAdapter, and bpp::AbstractParametrizable.

Referenced by bpp::InvariantMixedDiscreteDistribution::fireParameterChanged(), bpp::AbstractNumericalDerivative::matchParametersValues(), bpp::FunctionWrapper::matchParametersValues(), and bpp::InfinityFunctionWrapper::matchParametersValues().

AbstractDiscreteDistribution & AbstractDiscreteDistribution::operator= ( const AbstractDiscreteDistribution & adde )

Definition at line 77 of file AbstractDiscreteDistribution.cpp.

References bounds_, distribution_, intMinMax_, median_, and numberOfCategories_.

virtual double bpp::DiscreteDistribution::pProb ( double x ) const [pure virtual, inherited]

Return the cumulative quantile of the continuous version of the distribution, ie $ Prob(X<x) $ .

Implemented in bpp::MixtureOfDiscreteDistributions, bpp::SimpleDiscreteDistribution, bpp::InvariantMixedDiscreteDistribution, bpp::TruncatedExponentialDiscreteDistribution, bpp::BetaDiscreteDistribution, bpp::GammaDiscreteDistribution, bpp::ExponentialDiscreteDistribution, bpp::UniformDiscreteDistribution, bpp::GaussianDiscreteDistribution, and bpp::ConstantDistribution.

Referenced by discretize(), bpp::InvariantMixedDiscreteDistribution::pProb(), and bpp::InvariantMixedDiscreteDistribution::qProb().

double bpp::AbstractDiscreteDistribution::precision ( ) const [inline]

Definition at line 216 of file AbstractDiscreteDistribution.h.

References distribution_.

Referenced by discretize(), bpp::BetaDiscreteDistribution::fireParameterChanged(), bpp::SimpleDiscreteDistribution::fireParameterChanged(), bpp::MixtureOfDiscreteDistributions::MixtureOfDiscreteDistributions(), and bpp::SimpleDiscreteDistribution::SimpleDiscreteDistribution().

void AbstractDiscreteDistribution::print ( OutputStream & out ) const [virtual]

Print the distribution (categories and corresponding probabilities) to a stream.

Parameters:

out	The outstream where to print the distribution.

Implements bpp::DiscreteDistribution.

Definition at line 279 of file AbstractDiscreteDistribution.cpp.

References distribution_.

virtual double bpp::DiscreteDistribution::qProb ( double x ) const [pure virtual, inherited]

Return the quantile of the continuous version of the distribution, ie y such that $ Prob(X<y)=x $ .

Implemented in bpp::MixtureOfDiscreteDistributions, bpp::SimpleDiscreteDistribution, bpp::TruncatedExponentialDiscreteDistribution, bpp::InvariantMixedDiscreteDistribution, bpp::ExponentialDiscreteDistribution, bpp::BetaDiscreteDistribution, bpp::GammaDiscreteDistribution, bpp::UniformDiscreteDistribution, bpp::GaussianDiscreteDistribution, and bpp::ConstantDistribution.

Referenced by discretize(), and bpp::InvariantMixedDiscreteDistribution::qProb().

double AbstractDiscreteDistribution::rand ( ) const [virtual]

Draw a random number from this distribution.

This number will be one of the class values, drawn according to the class probabilities.

Returns:: A random number according to this distribution.

Implements bpp::DiscreteDistribution.

Definition at line 197 of file AbstractDiscreteDistribution.cpp.

References distribution_, and bpp::RandomTools::giveRandomNumberBetweenZeroAndEntry().

double bpp::AbstractDiscreteDistribution::randC ( ) const throw (Exception) [inline, virtual]

Draw a random number from the continuous version of this distribution, if it exists.

Uses the continuous version of this distribution to draw a random number.

Returns:: A random number according to this distribution.

Exceptions:

Exception If there is no continuous version of this distribution.

Implements bpp::DiscreteDistribution.

Reimplemented in bpp::TruncatedExponentialDiscreteDistribution, bpp::BetaDiscreteDistribution, bpp::ExponentialDiscreteDistribution, bpp::GammaDiscreteDistribution, bpp::GaussianDiscreteDistribution, bpp::UniformDiscreteDistribution, and bpp::ConstantDistribution.

Definition at line 171 of file AbstractDiscreteDistribution.h.

void bpp::AbstractParameterAliasable::resetParameters_ ( ) [inline, protected, inherited]

Reimplemented from bpp::AbstractParametrizable.

Definition at line 209 of file AbstractParameterAliasable.h.

References bpp::AbstractParameterAliasable::independentParameters_, and bpp::ParameterList::reset().

void AbstractDiscreteDistribution::restrictToConstraint ( const Constraint & c ) [virtual]

Restricts the distribution to the domain where the constraint is respected, in addition of other predefined constraints.

Parameters:

c	The Constraint to respect.

Implements bpp::DiscreteDistribution.

Reimplemented in bpp::MixtureOfDiscreteDistributions, bpp::SimpleDiscreteDistribution, bpp::InvariantMixedDiscreteDistribution, bpp::TruncatedExponentialDiscreteDistribution, and bpp::ConstantDistribution.

Definition at line 454 of file AbstractDiscreteDistribution.cpp.

References discretize(), and intMinMax_.

void AbstractDiscreteDistribution::set	(	double	category,
		double	probability
	)		`[virtual]`

Set the probability associated to a class.

If the category does not exist, a new category is created with the corresponding probability. If the category already exist, its probability is set to 'probability'. The sum of all probabilities is not checked.

Parameters:

category	The class value.
probability	The class probability.

Implements bpp::DiscreteDistribution.

Definition at line 174 of file AbstractDiscreteDistribution.cpp.

References distribution_.

void bpp::AbstractParametrizable::setAllParametersValues ( const ParameterList & parameters ) throw (ParameterNotFoundException, ConstraintException) [inline, virtual, inherited]

Set the parameters values to be equals to those of parameters.

The list must contain exactly the same parameters (ie same names) than the parameters available.

Parameters:

parameters A list with all parameters.

Exceptions:

ParameterNotFoundException	If a some parameter in the list is not in params.
ConstraintException	If a value in parameters does not match the constraint in the corresponding parameter in the list.

Implements bpp::Parametrizable.

Definition at line 90 of file AbstractParametrizable.h.

References bpp::AbstractParametrizable::fireParameterChanged(), bpp::AbstractParametrizable::parameters_, and bpp::ParameterList::setAllParametersValues().

virtual void bpp::Parametrizable::setAllParametersValues ( const ParameterList & parameters ) throw (ParameterNotFoundException, ConstraintException) [pure virtual, inherited]

Set the parameters values to be equals to those of parameters.

The list must contain exactly the same parameters (ie same names) than the parameters available.

Parameters:

parameters A list with all parameters.

Exceptions:

ParameterNotFoundException	If a some parameter in the list is not in params.
ConstraintException	If a value in parameters does not match the constraint in the corresponding parameter in the list.

Implemented in bpp::InfinityFunctionWrapper, bpp::FunctionWrapper, bpp::AbstractNumericalDerivative, bpp::ParametrizableAdapter, and bpp::AbstractParametrizable.

Referenced by bpp::AbstractNumericalDerivative::setAllParametersValues(), bpp::FunctionWrapper::setAllParametersValues(), and bpp::InfinityFunctionWrapper::setAllParametersValues().

void bpp::AbstractDiscreteDistribution::setMedian ( bool median ) [inline, virtual]

Sets the median value to true to say that the value in a class is proportional to the median value of the class, the proportionality factor being such that the sum of the values equals the expectation of the distribution. If it is set to false, the value is the mean value in the class.

If the median value is modified, the discretization process is launched.

Parameters:

median tells how the value associated to each class is computed.

Implements bpp::DiscreteDistribution.

Reimplemented in bpp::MixtureOfDiscreteDistributions, and bpp::InvariantMixedDiscreteDistribution.

Definition at line 218 of file AbstractDiscreteDistribution.h.

References discretize(), and median_.

void AbstractParameterAliasable::setNamespace ( const std::string & prefix ) [virtual, inherited]

Set the namespace for the parameter names.

Parameters:

prefix The 'namespace', that is a prefix to add to all parameter names. If parameter names are already prefixed, the new prefix will be used instead.

Reimplemented from bpp::AbstractParametrizable.

Reimplemented in bpp::MixtureOfDiscreteDistributions, and bpp::InvariantMixedDiscreteDistribution.

Definition at line 171 of file AbstractParameterAliasable.cpp.

References bpp::AbstractParameterAliasable::aliasListenersRegister_, bpp::AbstractParametrizable::getNamespace(), bpp::AbstractParameterAliasable::independentParameters_, bpp::ParameterList::size(), and bpp::TextTools::startsWith().

virtual void bpp::Parametrizable::setNamespace ( const std::string & prefix ) [pure virtual, inherited]

Set the namespace for the parameter names.

Parameters:

prefix The 'namespace', that is a prefix to add to all parameter names. If parameter names are already prefixed, the new prefix will be used instead.

Implemented in bpp::FunctionWrapper, bpp::ParametrizableAdapter, bpp::AbstractParameterAliasable, bpp::MixtureOfDiscreteDistributions, bpp::AbstractParametrizable, and bpp::InvariantMixedDiscreteDistribution.

Referenced by bpp::InvariantMixedDiscreteDistribution::InvariantMixedDiscreteDistribution(), bpp::InvariantMixedDiscreteDistribution::setNamespace(), and bpp::FunctionWrapper::setNamespace().

void AbstractDiscreteDistribution::setNumberOfCategories ( size_t nbClasses ) [virtual]

sets the number of categories and discretizes if there is a change in this number.

Implements bpp::DiscreteDistribution.

Reimplemented in bpp::MixtureOfDiscreteDistributions.

Definition at line 96 of file AbstractDiscreteDistribution.cpp.

References discretize(), and numberOfCategories_.

void bpp::AbstractParametrizable::setParametersValues ( const ParameterList & parameters ) throw (ParameterNotFoundException, ConstraintException) [inline, virtual, inherited]

Update the parameters from parameters.

parameters must be a subset of all parameters available.

Parameters:

parameters A list containing all parameters to update.

Exceptions:

ParameterNotFoundException	If a some parameter in params is not in the list.
ConstraintException	If a value in parameters does not match the constraint in the corresponding parameter in the list.

Implements bpp::Parametrizable.

Definition at line 104 of file AbstractParametrizable.h.

References bpp::AbstractParametrizable::fireParameterChanged(), bpp::AbstractParametrizable::parameters_, and bpp::ParameterList::setParametersValues().

Referenced by bpp::RescaledHmmLikelihood::setParameters(), bpp::LogsumHmmLikelihood::setParameters(), and bpp::LowMemoryRescaledHmmLikelihood::setParameters().

virtual void bpp::Parametrizable::setParametersValues ( const ParameterList & parameters ) throw (ParameterNotFoundException, ConstraintException) [pure virtual, inherited]

Update the parameters from parameters.

parameters must be a subset of all parameters available.

Parameters:

parameters A list containing all parameters to update.

Exceptions:

ParameterNotFoundException	If a some parameter in params is not in the list.
ConstraintException	If a value in parameters does not match the constraint in the corresponding parameter in the list.

Implemented in bpp::InfinityFunctionWrapper, bpp::FunctionWrapper, bpp::AbstractNumericalDerivative, bpp::ParametrizableAdapter, and bpp::AbstractParametrizable.

Referenced by bpp::AbstractNumericalDerivative::setParametersValues(), bpp::FunctionWrapper::setParametersValues(), and bpp::InfinityFunctionWrapper::setParametersValues().

void bpp::AbstractParametrizable::setParameterValue	(	const std::string &	name,
		double	value
	)		throw (ParameterNotFoundException, ConstraintException) `[inline, virtual, inherited]`

Set the value of parameter with name name to be equal to value.

Parameters:

name	the name of the parameter to set.
value	The value of the parameter.

Exceptions:

ParameterNotFoundException	If no parameter in the list has the name name.
ConstraintException	If value does not match the constraint associated to parameter name.

Implements bpp::Parametrizable.

Definition at line 97 of file AbstractParametrizable.h.

References bpp::AbstractParametrizable::fireParameterChanged(), bpp::AbstractParametrizable::parameters_, bpp::AbstractParametrizable::prefix_, bpp::ParameterList::setParameterValue(), and bpp::ParameterList::subList().

virtual void bpp::Parametrizable::setParameterValue	(	const std::string &	name,
		double	value
	)		throw (ParameterNotFoundException, ConstraintException) `[pure virtual, inherited]`

Set the value of parameter with name name to be equal to value.

Parameters:

name	the name of the parameter to set.
value	The value of the parameter.

Exceptions:

ParameterNotFoundException	If no parameter in the list has the name name.
ConstraintException	If value does not match the constraint associated to parameter name.

Implemented in bpp::InfinityFunctionWrapper, bpp::FunctionWrapper, bpp::AbstractNumericalDerivative, bpp::ParametrizableAdapter, and bpp::AbstractParametrizable.

Referenced by bpp::AbstractNumericalDerivative::setParameterValue(), bpp::FunctionWrapper::setParameterValue(), and bpp::InfinityFunctionWrapper::setParameterValue().

bool bpp::AbstractDiscreteDistribution::strictLowerBound ( ) const [inline, virtual]

Returns:: The lowest value.

Reimplemented from bpp::DiscreteDistribution.

Definition at line 202 of file AbstractDiscreteDistribution.h.

References intMinMax_, and bpp::IntervalConstraint::strictLowerBound().

bool bpp::AbstractDiscreteDistribution::strictUpperBound ( ) const [inline, virtual]

Returns:: The highest value.

Reimplemented from bpp::DiscreteDistribution.

Definition at line 207 of file AbstractDiscreteDistribution.h.

References intMinMax_, and bpp::IntervalConstraint::strictUpperBound().

virtual void bpp::ParameterAliasable::unaliasParameters	(	const std::string &	p1,
		const std::string &	p2
	)		throw (ParameterNotFoundException, Exception) `[pure virtual, inherited]`

Detach two parameters previously set as 'aliased'.

The values of the two parameters will now be independent.

Parameters:

p1	Original parameter.
p2	Aliased parameter.

Exceptions:

ParameterNotFoundException	if p1 or p2 do not correspond to existing parameters.
Exception	when trying to perform non-valid dissociation.

Implemented in bpp::AbstractParameterAliasable.

void AbstractParameterAliasable::unaliasParameters	(	const std::string &	p1,
		const std::string &	p2
	)		throw (ParameterNotFoundException, Exception) `[virtual, inherited]`