edu.umd.hooka.alignment.hmm
Class ATable

java.lang.Object
  edu.umd.hooka.alignment.hmm.ATable

All Implemented Interfaces:

Cloneable, Writable

public class ATable
extends Object
implements Writable, Cloneable

Constructor Summary

ATable()

ATable(boolean homo, int conditioning_values, int dist)

Method Summary

void	add(int coord, char condition, float v)
void	add(int jump, char condition, int dummy, float v)
void	clear()
Object	clone()
float	get(int jump, char condition)
float	get(int jump, char condition, int dummy)
int	getCoord(int jump, char condition)
int	getMaxDist()
void	normalize()
void	plusEquals(ATable rhs)
void	readFields(DataInput in)
String	toString()
void	write(DataOutput out)

Methods inherited from class java.lang.Object

equals, getClass, hashCode, notify, notifyAll, wait, wait, wait

Constructor Detail

ATable

public ATable()

ATable

public ATable(boolean homo,
              int conditioning_values,
              int dist)

Method Detail

clone

public Object clone()

Overrides:

clone in class Object

clear

public void clear()

getMaxDist

public final int getMaxDist()

get

public float get(int jump,
                 char condition)

get

public float get(int jump,
                 char condition,
                 int dummy)

add

public void add(int jump,
                char condition,
                int dummy,
                float v)

add

public void add(int coord,
                char condition,
                float v)

getCoord

public int getCoord(int jump,
                    char condition)

plusEquals

public void plusEquals(ATable rhs)

normalize

public void normalize()

toString

public String toString()

Overrides:

toString in class Object

readFields

public void readFields(DataInput in)
                throws IOException

Specified by:

readFields in interface Writable

Throws:

IOException

write

public void write(DataOutput out)
           throws IOException

Specified by:

write in interface Writable

Throws:

IOException