ModelTest

Class TestInstance

java.lang.Object

ModelTest.TestInstance

public class TestInstance
extends java.lang.Object

Represents a particular instance (calculator and parameters) to be tested to find the best performing. Also used to include an adapter (see Whelan 2015) if required.

Version:

2.0

Constructor Summary

Constructors

Constructor and Description
TestInstance(Calculator<Likelihood> c, Parameters p) Creates an instance
TestInstance(Calculator<Likelihood> c, Parameters p, Adapter adapter, Alignment distinct) Creates a named instance.
TestInstance(Calculator<Likelihood> c, Parameters p, java.lang.String name) Creates a named instance.
TestInstance(Calculator<Likelihood> c, Parameters p, java.lang.String name, Adapter adapter, Alignment distinct) Creates a named instance.

Method Summary

Methods

Modifier and Type	Method and Description
double	getAdapterL() Get the likelihood of the adapter associated with this instance
Calculator<Likelihood>	getCalculator() Get the calculator associated with this instance
java.lang.String	getName() Get the name of this instance
int	getNumberAdapterParams() Get the number of parameters associated with the adapter for this instance
Parameters	getParameters() Get the parameters associated with this instance

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Detail

TestInstance

public TestInstance(Calculator<Likelihood> c,
            Parameters p)

Creates an instance

Parameters:

c - The calculator

p - The parameters

TestInstance

public TestInstance(Calculator<Likelihood> c,
            Parameters p,
            java.lang.String name)

Creates a named instance. The name can be used to ease identification of the best instance found.

Parameters:

c - The calculator

p - The parameters

name - Name for the instance

TestInstance

public TestInstance(Calculator<Likelihood> c,
            Parameters p,
            Adapter adapter,
            Alignment distinct)

Creates a named instance. The name can be used to ease identification of the best instance found.

Parameters:

c - The calculator

p - The parameters

adapter - The adapter to be used. See Whelan et al 2015 for more.

distinct - The comparable distinct alignment. See Whelan et al 2015 for more

TestInstance

public TestInstance(Calculator<Likelihood> c,
            Parameters p,
            java.lang.String name,
            Adapter adapter,
            Alignment distinct)

Creates a named instance. The name can be used to ease identification of the best instance found.

Parameters:

c - The calculator

p - The parameters

name - Name for the instance

adapter - The adapter to be used. See Whelan et al 2015 for more.

distinct - The comparable distinct alignment. See Whelan et al 2015 for more

Method Detail

getCalculator

public Calculator<Likelihood> getCalculator()

Get the calculator associated with this instance

Returns:

The calculator

getParameters

public Parameters getParameters()

Get the parameters associated with this instance

Returns:

The parameters

getName

public java.lang.String getName()

Get the name of this instance

Returns:

The name

getNumberAdapterParams

public int getNumberAdapterParams()

Get the number of parameters associated with the adapter for this instance

Returns:

The number of parameters

getAdapterL

public double getAdapterL()

Get the likelihood of the adapter associated with this instance

Returns:

The likelihood