Package pal.misc
Class ParameterizedDoubleBundle
java.lang.Object
pal.misc.ParameterizedDoubleBundle
- All Implemented Interfaces:
NeoParameterized
Title: ParameterizedDoubleBundle
Description: A parameterized double bundle is simple a parameterized collection of mutable double objects. The idea is, all the changable attributes of the phylogenetic entities that are being accessed (eg the branch lengths of a tree, and the parameters of a model) can be grouped together externally (the point of this approach will become more apparent over time as PAL evolves)
- Version:
- 1.0
- Author:
- Matthew Goode
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Constructor Summary
Constructors -
Method Summary
Modifier and TypeMethodDescriptionvoid
getDefaultValues
(double[] store, int startIndex) get default value parameter valuesdouble
getLowerLimit
(int n) get lower parameter limitint
get number of parametersvoid
getParameters
(double[] parameterStore, int startIndex) get model parameterdouble
getUpperLimit
(int n) get upper parameter limitvoid
setParameters
(double[] parameters, int startIndex) set model parametertoString()
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Constructor Details
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ParameterizedDoubleBundle
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Method Details
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getNumberOfParameters
public int getNumberOfParameters()Description copied from interface:NeoParameterized
get number of parameters- Specified by:
getNumberOfParameters
in interfaceNeoParameterized
- Returns:
- number of parameters
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setParameters
public void setParameters(double[] parameters, int startIndex) Description copied from interface:NeoParameterized
set model parameter- Specified by:
setParameters
in interfaceNeoParameterized
- Parameters:
parameters
- the array holding the parametersstartIndex
- the index into the array that the related parameters start at
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getParameters
public void getParameters(double[] parameterStore, int startIndex) Description copied from interface:NeoParameterized
get model parameter- Specified by:
getParameters
in interfaceNeoParameterized
startIndex
- the index into the array that the related parameters start at
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getLowerLimit
public double getLowerLimit(int n) Description copied from interface:NeoParameterized
get lower parameter limit- Specified by:
getLowerLimit
in interfaceNeoParameterized
- Parameters:
n
- parameter number- Returns:
- lower bound
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getUpperLimit
public double getUpperLimit(int n) Description copied from interface:NeoParameterized
get upper parameter limit- Specified by:
getUpperLimit
in interfaceNeoParameterized
- Parameters:
n
- parameter number- Returns:
- upper bound
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getDefaultValues
public void getDefaultValues(double[] store, int startIndex) Description copied from interface:NeoParameterized
get default value parameter values- Specified by:
getDefaultValues
in interfaceNeoParameterized
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toString
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