bpp::GlobalClockTreeLikelihoodFunctionWrapper Member List

This is the complete list of members for bpp::GlobalClockTreeLikelihoodFunctionWrapper, including all inherited members.

AbstractParametrizable(const std::string &prefix)	bpp::AbstractParametrizable
addParameter_(Parameter *parameter)	bpp::AbstractParametrizable	protectedvirtual
addParameters_(const ParameterList &parameters)	bpp::AbstractParametrizable	protectedvirtual
clone() const	bpp::GlobalClockTreeLikelihoodFunctionWrapper	inlinevirtual
computeBranchLengthsFromHeights_(const Node *node, double height, ParameterList &brlenPl)	bpp::GlobalClockTreeLikelihoodFunctionWrapper	private
d2f(const std::string &variable, const ParameterList &parameters)	bpp::SecondOrderDerivable	virtual
d2f(const std::string &variable1, const std::string &variable2, const ParameterList &parameters)	bpp::SecondOrderDerivable	virtual
deleteParameter_(size_t index)	bpp::AbstractParametrizable	protectedvirtual
deleteParameter_(std::string &name)	bpp::AbstractParametrizable	protectedvirtual
deleteParameters_(const std::vector< std::string > &names)	bpp::AbstractParametrizable	protectedvirtual
df(const std::string &variable, const ParameterList &parameters)	bpp::SecondOrderDerivable	virtual
enableFirstOrderDerivatives(bool yn)	bpp::GlobalClockTreeLikelihoodFunctionWrapper	inlinevirtual
enableFirstOrderDerivatives() const	bpp::GlobalClockTreeLikelihoodFunctionWrapper	inlinevirtual
enableSecondOrderDerivatives(bool yn)	bpp::GlobalClockTreeLikelihoodFunctionWrapper	inlinevirtual
enableSecondOrderDerivatives() const	bpp::GlobalClockTreeLikelihoodFunctionWrapper	inlinevirtual
f(const ParameterList &parameters)	bpp::SecondOrderDerivable	virtual
fireParameterChanged(const bpp::ParameterList &pl)	bpp::GlobalClockTreeLikelihoodFunctionWrapper	virtual
FirstOrderDerivable()	bpp::FirstOrderDerivable
FunctionInterface()	bpp::FunctionInterface
getFirstOrderDerivative(const std::string &variable) const	bpp::GlobalClockTreeLikelihoodFunctionWrapper	inlinevirtual
getHeightParameters() const	bpp::GlobalClockTreeLikelihoodFunctionWrapper
bpp::getNamespace() const=0	bpp::SecondOrderDerivable	pure virtual
bpp::AbstractParametrizable::getNamespace() const override	bpp::AbstractParametrizable	virtual
bpp::getNumberOfParameters() const=0	bpp::SecondOrderDerivable	pure virtual
bpp::AbstractParametrizable::getNumberOfParameters() const override	bpp::AbstractParametrizable	virtual
getParameter(const std::string &name) const	bpp::AbstractParametrizable
getParameter(size_t i) const	bpp::AbstractParametrizable	protected
getParameter(size_t i)	bpp::AbstractParametrizable	protected
getParameter_(const std::string &name)	bpp::AbstractParametrizable	protected
getParameter_(size_t index)	bpp::AbstractParametrizable	protected
getParameter_(size_t index) const	bpp::AbstractParametrizable	protected
bpp::getParameterNameWithoutNamespace(const std::string &name) const=0	bpp::SecondOrderDerivable	pure virtual
bpp::AbstractParametrizable::getParameterNameWithoutNamespace(const std::string &name) const override	bpp::AbstractParametrizable	virtual
bpp::getParameters() const=0	bpp::SecondOrderDerivable	pure virtual
bpp::AbstractParametrizable::getParameters() const override	bpp::AbstractParametrizable	virtual
bpp::getParameters_()=0	bpp::SecondOrderDerivable	protectedpure virtual
bpp::AbstractParametrizable::getParameters_() override	bpp::AbstractParametrizable	protectedvirtual
bpp::getParameterValue(const std::string &name) const=0	bpp::SecondOrderDerivable	pure virtual
bpp::AbstractParametrizable::getParameterValue(const std::string &name) const override	bpp::AbstractParametrizable	virtual
getParameterWithNamespace_(const std::string &name)	bpp::AbstractParametrizable	protected
getParameterWithNamespace_(const std::string &name) const	bpp::AbstractParametrizable	protected
getSecondOrderDerivative(const std::string &variable1, const std::string &variable2) const	bpp::GlobalClockTreeLikelihoodFunctionWrapper	inlinevirtual
getSecondOrderDerivative(const std::string &variable) const	bpp::GlobalClockTreeLikelihoodFunctionWrapper	inlinevirtual
getValue() const	bpp::GlobalClockTreeLikelihoodFunctionWrapper	inlinevirtual
GlobalClockTreeLikelihoodFunctionWrapper(std::shared_ptr< TreeLikelihoodInterface > tl)	bpp::GlobalClockTreeLikelihoodFunctionWrapper	inline
GlobalClockTreeLikelihoodFunctionWrapper(const GlobalClockTreeLikelihoodFunctionWrapper &gctlfw)	bpp::GlobalClockTreeLikelihoodFunctionWrapper	inline
bpp::hasParameter(const std::string &name) const=0	bpp::SecondOrderDerivable	pure virtual
bpp::AbstractParametrizable::hasParameter(const std::string &name) const override	bpp::AbstractParametrizable	virtual
includeParameters_(const ParameterList &parameters)	bpp::AbstractParametrizable	protectedvirtual
initParameters_()	bpp::GlobalClockTreeLikelihoodFunctionWrapper	private
bpp::matchParametersValues(const ParameterList &parameters)=0	bpp::SecondOrderDerivable	pure virtual
bpp::AbstractParametrizable::matchParametersValues(const ParameterList &parameters) override	bpp::AbstractParametrizable	virtual
operator=(const GlobalClockTreeLikelihoodFunctionWrapper &gctlfw)	bpp::GlobalClockTreeLikelihoodFunctionWrapper	inline
bpp::parameter(const std::string &name) const=0	bpp::SecondOrderDerivable	pure virtual
bpp::AbstractParametrizable::parameter(const std::string &name) const override	bpp::AbstractParametrizable	virtual
parameters_	bpp::AbstractParametrizable	private
Parametrizable()	bpp::Parametrizable
prefix_	bpp::AbstractParametrizable	private
bpp::removeConstraint(const std::string &name)=0	bpp::SecondOrderDerivable	pure virtual
bpp::AbstractParametrizable::removeConstraint(const std::string &name) override	bpp::AbstractParametrizable	virtual
resetParameters_()	bpp::AbstractParametrizable	protected
SecondOrderDerivable()	bpp::SecondOrderDerivable
bpp::setAllParametersValues(const ParameterList &parameters)=0	bpp::SecondOrderDerivable	pure virtual
bpp::AbstractParametrizable::setAllParametersValues(const ParameterList &parameters) override	bpp::AbstractParametrizable	virtual
bpp::setConstraint(const std::string &name, std::shared_ptr< ConstraintInterface > constraint)=0	bpp::SecondOrderDerivable	pure virtual
bpp::AbstractParametrizable::setConstraint(const std::string &name, std::shared_ptr< ConstraintInterface > constraint) override	bpp::AbstractParametrizable	virtual
bpp::setNamespace(const std::string &prefix)=0	bpp::SecondOrderDerivable	pure virtual
bpp::AbstractParametrizable::setNamespace(const std::string &prefix) override	bpp::AbstractParametrizable	virtual
setParameters(const ParameterList &pl)	bpp::GlobalClockTreeLikelihoodFunctionWrapper	inlinevirtual
bpp::setParametersValues(const ParameterList &parameters)=0	bpp::SecondOrderDerivable	pure virtual
bpp::AbstractParametrizable::setParametersValues(const ParameterList &parameters) override	bpp::AbstractParametrizable	virtual
bpp::setParameterValue(const std::string &name, double value)=0	bpp::SecondOrderDerivable	pure virtual
bpp::AbstractParametrizable::setParameterValue(const std::string &name, double value) override	bpp::AbstractParametrizable	virtual
shareParameter_(const std::shared_ptr< Parameter > &parameter)	bpp::AbstractParametrizable	protectedvirtual
shareParameters_(const ParameterList &parameters)	bpp::AbstractParametrizable	protectedvirtual
tl_	bpp::GlobalClockTreeLikelihoodFunctionWrapper	private
~AbstractParametrizable()	bpp::AbstractParametrizable	virtual
~Clonable()=default	bpp::Clonable	virtual
~FirstOrderDerivable()	bpp::FirstOrderDerivable	virtual
~FunctionInterface()	bpp::FunctionInterface	virtual
~Parametrizable()	bpp::Parametrizable	virtual
~SecondOrderDerivable()	bpp::SecondOrderDerivable	virtual