bpp::OptimizationTools::ScaleFunction Class Reference

Inheritance diagram for bpp::OptimizationTools::ScaleFunction:

Collaboration diagram for bpp::OptimizationTools::ScaleFunction:

Public Member Functions
	ScaleFunction (TreeLikelihood *tl)
	ScaleFunction (const ScaleFunction &sf)
ScaleFunction &	operator= (const ScaleFunction &sf)
virtual	~ScaleFunction ()
ScaleFunction *	clone () const
void	setParameters (const ParameterList &lambda) throw (ParameterNotFoundException, ConstraintException)
double	getValue () const throw (ParameterException)
const ParameterList &	getParameters () const throw (Exception)
const Parameter &	getParameter (const std::string &name) const throw (ParameterNotFoundException)
double	getParameterValue (const std::string &name) const throw (ParameterNotFoundException)
size_t	getNumberOfParameters () const
size_t	getNumberOfIndependentParameters () const

Private Attributes
TreeLikelihood *	tl_
ParameterList	brLen_
ParameterList	lambda_

Detailed Description

Definition at line 493 of file OptimizationTools.h.

Constructor & Destructor Documentation

ScaleFunction() [1/2]

OptimizationTools::ScaleFunction::ScaleFunction

(

TreeLikelihood *

tl

)

Definition at line 77 of file OptimizationTools.cpp.

References brLen_, bpp::TreeLikelihood::getBranchLengthsParameters(), and lambda_.

Referenced by clone().

ScaleFunction() [2/2]

bpp::OptimizationTools::ScaleFunction::ScaleFunction ( const ScaleFunction &  sf )

inline

Definition at line 504 of file OptimizationTools.h.

~ScaleFunction()

OptimizationTools::ScaleFunction::~ScaleFunction ( )

virtual

Definition at line 89 of file OptimizationTools.cpp.

Member Function Documentation

clone()

ScaleFunction* bpp::OptimizationTools::ScaleFunction::clone ( ) const

inline

Definition at line 525 of file OptimizationTools.h.

References ScaleFunction().

getNumberOfIndependentParameters()

size_t bpp::OptimizationTools::ScaleFunction::getNumberOfIndependentParameters ( ) const

inline

Definition at line 541 of file OptimizationTools.h.

getNumberOfParameters()

size_t bpp::OptimizationTools::ScaleFunction::getNumberOfParameters ( ) const

inline

Definition at line 540 of file OptimizationTools.h.

getParameter()

const Parameter& bpp::OptimizationTools::ScaleFunction::getParameter ( const std::string &  name ) const throw ( ParameterNotFoundException )

inline

Definition at line 531 of file OptimizationTools.h.

References lambda_.

getParameters()

const ParameterList& bpp::OptimizationTools::ScaleFunction::getParameters ( ) const throw ( Exception )

inline

Definition at line 530 of file OptimizationTools.h.

References lambda_.

Referenced by bpp::OptimizationTools::optimizeTreeScale().

getParameterValue()

double bpp::OptimizationTools::ScaleFunction::getParameterValue ( const std::string &  name ) const throw ( ParameterNotFoundException )

inline

Definition at line 536 of file OptimizationTools.h.

References lambda_.

getValue()

double OptimizationTools::ScaleFunction::getValue	(		)	const
throw	(	ParameterException
	)

Definition at line 99 of file OptimizationTools.cpp.

operator=()

ScaleFunction& bpp::OptimizationTools::ScaleFunction::operator= ( const ScaleFunction &  sf )

inline

Definition at line 510 of file OptimizationTools.h.

References brLen_, lambda_, and tl_.

setParameters()

void OptimizationTools::ScaleFunction::setParameters	(	const ParameterList &	lambda	)
throw	(	ParameterNotFoundException,
		ConstraintException
	)

Definition at line 91 of file OptimizationTools.cpp.

Member Data Documentation

brLen_

ParameterList bpp::OptimizationTools::ScaleFunction::brLen_

mutableprivate

Definition at line 499 of file OptimizationTools.h.

Referenced by operator=(), and ScaleFunction().

lambda_

ParameterList bpp::OptimizationTools::ScaleFunction::lambda_

mutableprivate

Definition at line 499 of file OptimizationTools.h.

Referenced by getParameter(), getParameters(), getParameterValue(), operator=(), and ScaleFunction().

tl_

TreeLikelihood* bpp::OptimizationTools::ScaleFunction::tl_

private

Definition at line 498 of file OptimizationTools.h.

Referenced by operator=().

---

The documentation for this class was generated from the following files:

• Bpp/Phyl/OptimizationTools.h
• Bpp/Phyl/OptimizationTools.cpp