pal.misc
Interface NeoParameterized

All Known Subinterfaces:

SingleSplitDistribution

All Known Implementing Classes:

ConstantIndependentSingleSplitDistribution, FixedBSRDTGlobalClockModel, GlobalClockModel, MRDTGlobalClockModel, MultiRateMatrixHandler, ParameterizedDoubleBundle, ParameterizedNeoWrapper, SaturatedSingleSplitDistribution, SRDTGlobalClockModel, VariableIndependentSingleSplitDistribution

public interface NeoParameterized

interface for class with (optimizable) parameters. A replacement for the Parameterized interface with it's irritating updating of one parameter at a time

Version:

$Id: NeoParameterized.java,v 1.1 2004/08/02 05:22:04 matt Exp $

Author:

Korbinian Strimmer, Matthew Goode

Method Summary

void	getDefaultValues(double[] store, int startIndex) get default value parameter values
double	getLowerLimit(int n) get lower parameter limit
int	getNumberOfParameters() get number of parameters
void	getParameters(double[] parameterStore, int startIndex) get model parameter
double	getUpperLimit(int n) get upper parameter limit
void	setParameters(double[] parameters, int startIndex) set model parameter

Method Detail

getNumberOfParameters

int getNumberOfParameters()

get number of parameters

Returns:

number of parameters

setParameters

void setParameters(double[] parameters,
                   int startIndex)

set model parameter

Parameters:

parameters - the array holding the parameters

startIndex - the index into the array that the related parameters start at

getParameters

void getParameters(double[] parameterStore,
                   int startIndex)

get model parameter

Parameters:

parameters - the array holding the parameters

startIndex - the index into the array that the related parameters start at

getLowerLimit

double getLowerLimit(int n)

get lower parameter limit

Parameters:

n - parameter number

Returns:

lower bound

getUpperLimit

double getUpperLimit(int n)

get upper parameter limit

Parameters:

n - parameter number

Returns:

upper bound

getDefaultValues

void getDefaultValues(double[] store,
                      int startIndex)

get default value parameter values