cytoscape.data.writers
Class XGMMLWriter

java.lang.Object
  cytoscape.data.writers.XGMMLWriter

public class XGMMLWriter
extends Object

Write network and attributes in a streme.

Author:

kono

Field Summary

static String	BACKGROUND
protected static String	BOOLEAN_TYPE
protected static String	COMPLEX_TYPE
protected static String	DIAMOND
protected static int	EDGE
protected static String	ELLIPSE
protected static String	FLOAT_TYPE
static String	GRAPH_VIEW_CENTER_X
static String	GRAPH_VIEW_CENTER_Y
static String	GRAPH_VIEW_ZOOM
protected static String	HEXAGON
protected static String	INT_TYPE
protected static String	LINE
protected static String	LIST_TYPE
protected static String	MAP_TYPE
protected static String	METANODE
protected static int	NETWORK
protected static int	NODE
protected static String	NORMAL
protected static String	OCTAGON
protected static String	PARALELLOGRAM
protected static String	POINT
protected static String	RECTANGLE
protected static String	REFERENCE
protected static String	STRING_TYPE
protected static String	TRIANGLE

Constructor Summary

XGMMLWriter(CyNetwork network, CyNetworkView view)

Method Summary

protected void	attributeWriter(int type, String id, Object target) Extract attributes and map it to JAXB object
protected void	expand(CyNode node, Node metanode, int[] childrenIndices)
protected Graphics	getGraphics(int type, Object target)
protected String	number2shape(int type)
protected String	paint2string(Paint p)
void	write(Writer writer) Write the XGMML file.
protected void	writeMetanode()
protected void	writeNetworkAttributes()

Methods inherited from class java.lang.Object

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

Field Detail

RECTANGLE

protected static String RECTANGLE

ELLIPSE

protected static String ELLIPSE

LINE

protected static String LINE

POINT

protected static String POINT

DIAMOND

protected static String DIAMOND

HEXAGON

protected static String HEXAGON

OCTAGON

protected static String OCTAGON

PARALELLOGRAM

protected static String PARALELLOGRAM

TRIANGLE

protected static String TRIANGLE

NORMAL

protected static String NORMAL

METANODE

protected static String METANODE

REFERENCE

protected static String REFERENCE

NODE

protected static int NODE

EDGE

protected static int EDGE

NETWORK

protected static int NETWORK

BACKGROUND

public static final String BACKGROUND

See Also:

Constant Field Values

GRAPH_VIEW_ZOOM

public static final String GRAPH_VIEW_ZOOM

See Also:

Constant Field Values

GRAPH_VIEW_CENTER_X

public static final String GRAPH_VIEW_CENTER_X

See Also:

Constant Field Values

GRAPH_VIEW_CENTER_Y

public static final String GRAPH_VIEW_CENTER_Y

See Also:

Constant Field Values

FLOAT_TYPE

protected static final String FLOAT_TYPE

See Also:

Constant Field Values

INT_TYPE

protected static final String INT_TYPE

See Also:

Constant Field Values

STRING_TYPE

protected static final String STRING_TYPE

See Also:

Constant Field Values

LIST_TYPE

protected static final String LIST_TYPE

See Also:

Constant Field Values

BOOLEAN_TYPE

protected static final String BOOLEAN_TYPE

See Also:

Constant Field Values

MAP_TYPE

protected static final String MAP_TYPE

See Also:

Constant Field Values

COMPLEX_TYPE

protected static final String COMPLEX_TYPE

See Also:

Constant Field Values

Constructor Detail

XGMMLWriter

public XGMMLWriter(CyNetwork network,
                   CyNetworkView view)

Method Detail

write

public void write(Writer writer)
           throws javax.xml.bind.JAXBException,
                  IOException

Write the XGMML file.

Parameters:

writer - :Witer to create XGMML file

Throws:

javax.xml.bind.JAXBException

IOException

writeNetworkAttributes

protected void writeNetworkAttributes()
                               throws javax.xml.bind.JAXBException

Throws:

javax.xml.bind.JAXBException

writeMetanode

protected void writeMetanode()

attributeWriter

protected void attributeWriter(int type,
                               String id,
                               Object target)
                        throws javax.xml.bind.JAXBException

Extract attributes and map it to JAXB object

Parameters:

type - - type of attribute (node, edge, network)

id - - id of node, edge, network (key into CyAttributes)

target - - jaxb object

Throws:

javax.xml.bind.JAXBException

getGraphics

protected Graphics getGraphics(int type,
                               Object target)
                        throws javax.xml.bind.JAXBException

Throws:

javax.xml.bind.JAXBException

expand

protected void expand(CyNode node,
                      Node metanode,
                      int[] childrenIndices)
               throws javax.xml.bind.JAXBException

Throws:

javax.xml.bind.JAXBException

number2shape

protected String number2shape(int type)

paint2string

protected String paint2string(Paint p)