uk.ac.vamsas.objects.utils.trees
Class SequenceNode

java.lang.Object
  uk.ac.vamsas.objects.utils.trees.BinaryNode
      uk.ac.vamsas.objects.utils.trees.SequenceNode

public class SequenceNode

extends BinaryNode

Field Summary

float	dist DOCUMENT ME!!
boolean	dummy DOCUMENT ME!!

Fields inherited from class uk.ac.vamsas.objects.utils.trees.BinaryNode

bootstrap

Constructor Summary

SequenceNode()
Creates a new SequenceNode object.

SequenceNode(Vobject val, SequenceNode parent, float dist, java.lang.String name)
Creates a new SequenceNode object.

SequenceNode(Vobject val, SequenceNode parent, java.lang.String name, float dist, int bootstrap, boolean dummy)
Creates a new SequenceNode object.

Method Summary

SequenceNode	AscendTree() ascends the tree but doesn't stop until a non-dummy node is discovered.
boolean	isDummy()
boolean	isPlaceholder()
boolean	setDummy(boolean newstate) DOCUMENT ME!
void	setPlaceholder(boolean Placeholder) DOCUMENT ME!

Methods inherited from class uk.ac.vamsas.objects.utils.trees.BinaryNode

ascendLeft, ascendRight, detach, element, getBootstrap, getName, isLeaf, left, parent, right, setBootstrap, SetChildren, setElement, setLeft, setName, setParent, setRight

Methods inherited from class java.lang.Object

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

Field Detail

dist

public float dist

DOCUMENT ME!!

dummy

public boolean dummy

DOCUMENT ME!!

Constructor Detail

SequenceNode

public SequenceNode()

Creates a new SequenceNode object.

SequenceNode

public SequenceNode(Vobject val,
                    SequenceNode parent,
                    float dist,
                    java.lang.String name)

Creates a new SequenceNode object.

Parameters:

val - DOCUMENT ME!

parent - DOCUMENT ME!

dist - DOCUMENT ME!

name - DOCUMENT ME!

SequenceNode

public SequenceNode(Vobject val,
                    SequenceNode parent,
                    java.lang.String name,
                    float dist,
                    int bootstrap,
                    boolean dummy)

Creates a new SequenceNode object.

Parameters:

val - DOCUMENT ME!

parent - DOCUMENT ME!

name - DOCUMENT ME!

dist - DOCUMENT ME!

bootstrap - DOCUMENT ME!

dummy - DOCUMENT ME!

Method Detail

isDummy

public boolean isDummy()

isPlaceholder

public boolean isPlaceholder()

setDummy

public boolean setDummy(boolean newstate)

DOCUMENT ME!

Parameters:

newstate - DOCUMENT ME!

Returns:

DOCUMENT ME!

setPlaceholder

public void setPlaceholder(boolean Placeholder)

DOCUMENT ME!

Parameters:

Placeholder - DOCUMENT ME!

AscendTree

public SequenceNode AscendTree()

ascends the tree but doesn't stop until a non-dummy node is discovered. This will probably break if the tree is a mixture of BinaryNodes and SequenceNodes.