cytoscape.data.readers
Class AbstractGraphReader

java.lang.Object
  cytoscape.data.readers.AbstractGraphReader

All Implemented Interfaces:

GraphReader

Direct Known Subclasses:

GMLReader, InteractionsReader, XGMMLReader

public abstract class AbstractGraphReader
extends Object
implements GraphReader

Constructor Summary

AbstractGraphReader(String fileName)
Creates a new AbstractGraphReader object.

Method Summary

void	doPostProcessing(CyNetwork network) Executes post-processing: no-op.
int[]	getEdgeIndicesArray() DOCUMENT ME!
CyLayoutAlgorithm	getLayoutAlgorithm() Return the CyLayoutAlgorithm used to layout the graph
String	getNetworkName() DOCUMENT ME!
int[]	getNodeIndicesArray() DOCUMENT ME!
void	layout(GraphView view) Deprecated. Use getLayoutAlgorithm().doLayout(view) instead. Will be removed 5/2008.
abstract void	read() DOCUMENT ME!

Methods inherited from class java.lang.Object

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

Constructor Detail

AbstractGraphReader

public AbstractGraphReader(String fileName)

Creates a new AbstractGraphReader object.

Parameters:

fileName - DOCUMENT ME!

Method Detail

read

public abstract void read()
                   throws IOException

DOCUMENT ME!

Specified by:

read in interface GraphReader

Throws:

IOException - DOCUMENT ME!

getNodeIndicesArray

public int[] getNodeIndicesArray()

DOCUMENT ME!

Specified by:

getNodeIndicesArray in interface GraphReader

Returns:

DOCUMENT ME!

getEdgeIndicesArray

public int[] getEdgeIndicesArray()

DOCUMENT ME!

Specified by:

getEdgeIndicesArray in interface GraphReader

Returns:

DOCUMENT ME!

getNetworkName

public String getNetworkName()

DOCUMENT ME!

Specified by:

getNetworkName in interface GraphReader

Returns:

DOCUMENT ME!

doPostProcessing

public void doPostProcessing(CyNetwork network)

Executes post-processing: no-op.

Specified by:

doPostProcessing in interface GraphReader

getLayoutAlgorithm

public CyLayoutAlgorithm getLayoutAlgorithm()

Return the CyLayoutAlgorithm used to layout the graph

Specified by:

getLayoutAlgorithm in interface GraphReader

layout

public void layout(GraphView view)

Deprecated. Use getLayoutAlgorithm().doLayout(view) instead. Will be removed 5/2008.

Description copied from interface: GraphReader

Lays out the graph.

Specified by:

layout in interface GraphReader