chemaxon.struc
Class CNode

java.lang.Object
  chemaxon.struc.CNode

All Implemented Interfaces:

java.lang.Cloneable, java.io.Serializable

Direct Known Subclasses:

MolAtom

public abstract class CNode

extends java.lang.Object

implements java.lang.Cloneable, java.io.Serializable

Node in a chemical graph.

Version:

3.1.4, 06/05/2003

Author:

Peter Csizmadia

See Also:

CGraph, Serialized Form

Field Summary

protected CEdge[]	edges The edges.
protected int	nedges Number of edges.

Constructor Summary

CNode()

Method Summary

protected void	add(CEdge edge) Add an edge if it had not been already added.
abstract java.lang.Object	clone() Clones the node.
CEdge	getEdge(int i) Gets the i-th edge.
int	getEdgeCount() Gets the number of edges/ligands.
CNode	getLigand(int i) Get the i-th ligand.
protected java.lang.Object	getLock() Get lock object for synchronization.
CGraph	getParent() Return the graph that contains this node.
int	indexOf(CEdge edge) Returns the index of the specified edge in this node.
boolean	isBoundTo(CNode other) Checks if this bond is connected to another one or not.
void	pack() Reduce memory usage.
protected void	removeAllEdges() Remove all edges.
protected void	removeEdge(CEdge edge) Remove an edge by reference.
protected void	removeEdge(int i) Remove an edge.
protected static void	setNode1(CEdge edge, CNode newnode) Sets the first node of an edge.
protected static void	setNode2(CEdge edge, CNode newnode) Sets the second node of an edge.
int	sringsize() Calculate the size of smallest ring containing this atom.
java.lang.String	toString() Overrides Object.toString() to ease debugging.

Methods inherited from class java.lang.Object

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

Field Detail

nedges

protected transient int nedges

Number of edges.

edges

protected transient CEdge[] edges

The edges.

Constructor Detail

CNode

public CNode()

Method Detail

getParent

public final CGraph getParent()

Return the graph that contains this node.

Returns:

the parent graph

getEdgeCount

public final int getEdgeCount()

Gets the number of edges/ligands.

Returns:

the number of edges

Since:

2.6

getEdge

public final CEdge getEdge(int i)

Gets the i-th edge.

Parameters:

i - edge index

Returns:

the edge object

Since:

2.6

getLigand

public final CNode getLigand(int i)

Get the i-th ligand.

Parameters:

i - edge index

Returns:

the node at the other end of the edge

Since:

2.6

indexOf

public final int indexOf(CEdge edge)

Returns the index of the specified edge in this node.

Parameters:

edge - edge reference

Returns:

the edge index

isBoundTo

public final boolean isBoundTo(CNode other)

Checks if this bond is connected to another one or not.

Parameters:

other - the other node

Returns:

true if the two nodes are connected with a bound, false otherwise

sringsize

public final int sringsize()

Calculate the size of smallest ring containing this atom.

Returns:

the SRS or Integer.MAX_VALUE if ring not found

pack

public void pack()

Reduce memory usage.

clone

public abstract java.lang.Object clone()

Clones the node.

Returns:

a node object with the same properties

toString

public java.lang.String toString()

Overrides Object.toString() to ease debugging. Returns a string consisting of the classname (without the package name!), the at-sign character `@', and the unsigned hexadecimal representation of the hash code of the object.

Returns:

a string representation of the object

add

protected void add(CEdge edge)

Add an edge if it had not been already added.

Parameters:

edge - the edge to add

removeAllEdges

protected void removeAllEdges()

Remove all edges.

removeEdge

protected void removeEdge(int i)

Remove an edge.

Parameters:

i - edge index

removeEdge

protected void removeEdge(CEdge edge)

Remove an edge by reference.

Parameters:

edge - edge reference to remove

getLock

protected final java.lang.Object getLock()

Get lock object for synchronization.

Returns:

reference to the top parent graph

setNode1

protected static void setNode1(CEdge edge,
                               CNode newnode)

Sets the first node of an edge. Use it from derived classes.

Parameters:

edge - the edge

newnode - the new node value

setNode2

protected static void setNode2(CEdge edge,
                               CNode newnode)

Sets the second node of an edge. Use it from derived classes.

Parameters:

edge - the edge

newnode - the new node value