cytoscape.giny
Class PhoebeNetworkView

java.lang.Object
  coltginy.ColtGraphViewModel
      phoebe.PGraphView
          cytoscape.giny.PhoebeNetworkView

All Implemented Interfaces:

CyNetworkView, GraphView

Deprecated. You should be using DingNetworkView instead. This will be removed in whatever major release follows 2.4.

public class PhoebeNetworkView
extends phoebe.PGraphView
implements CyNetworkView

Field Summary

Fields inherited from class phoebe.PGraphView

updateEdges

Fields inherited from class coltginy.ColtGraphViewModel

DEFAULT_BORDER_PAINT, DEFAULT_EDGE_END_PAINT, DEFAULT_EDGE_STROKE_PAINT, DEFAULT_EDGE_STROKE_PAINT_SELECTION, DEFAULT_NODE_PAINT, DEFAULT_NODE_SELECTION_PAINT, DEFAULT_X, DEFAULT_Y

Fields inherited from interface giny.view.GraphView

EDGE_LINE_TYPE, EDGE_PAINT, EDGE_SELECTION_PAINT, EDGE_SOURCE_END_PAINT, EDGE_SOURCE_END_SELECTED_PAINT, EDGE_SOURCE_END_TYPE, EDGE_TARGET_END_PAINT, EDGE_TARGET_END_SELECTED_PAINT, EDGE_TARGET_END_TYPE, EDGE_WIDTH, NODE_BORDER_PAINT, NODE_BORDER_WIDTH, NODE_HEIGHT, NODE_LABEL, NODE_PAINT, NODE_SELECTION_PAINT, NODE_SHAPE, NODE_WIDTH, NODE_X_POSITION, NODE_Y_POSITION, NODE_Z_POSITION, SOURCE_INDEX, TARGET_INDEX

Constructor Summary

PhoebeNetworkView(CyNetwork network, String title)
Deprecated. Creates a new PhoebeNetworkView object.

Method Summary

void	addEdgeContextMenuListener(EdgeContextMenuListener l) Deprecated. DOCUMENT ME!
void	addNodeContextMenuListener(NodeContextMenuListener l) Deprecated. DOCUMENT ME!
void	applyLayout(CyLayoutAlgorithm layout) Deprecated. Applies the given layout to the entire CyNetworkView
void	applyLayout(CyLayoutAlgorithm layout, CyNode[] nodes, CyEdge[] edges) Deprecated. Applies the given layout to only the given Nodes and Edges
void	applyLayout(CyLayoutAlgorithm layout, CyNodeView[] nodes, CyEdgeView[] edges) Deprecated. Applies the given layout to only the given NodeViews and EdgeViews
void	applyLayout(CyLayoutAlgorithm layout, int[] nodes, int[] edges) Deprecated. Applies the given layout to only the given Nodes and Edges
void	applyLockedLayout(CyLayoutAlgorithm layout, CyNode[] nodes, CyEdge[] edges) Deprecated. Applies the given layout to the entire CyNetworkView, but locks the given Nodes and Edges in place
void	applyLockedLayout(CyLayoutAlgorithm layout, CyNodeView[] nodes, CyEdgeView[] edges) Deprecated. Applies the given layout to the entire CyNetworkView, but locks the given NodeViews and EdgeViews in place
void	applyLockedLayout(CyLayoutAlgorithm layout, int[] nodes, int[] edges) Deprecated. Applies the given layout to the entire CyNetworkView, but locks the given Nodes and Edges in place
boolean	applyVizMap(CyEdge edge) Deprecated. Applies the given edge to the given vizmapper
boolean	applyVizMap(CyEdge edge, VisualStyle style) Deprecated. Applies the given edge to the given vizmapper
boolean	applyVizMap(CyNode node) Deprecated. Applies the given node to the given vizmapper
boolean	applyVizMap(CyNode node, VisualStyle style) Deprecated. Applies the given node to the given vizmapper
boolean	applyVizMap(EdgeView edge_view) Deprecated. Applies the given edge to the given vizmapper
boolean	applyVizMap(EdgeView edge_view, VisualStyle style) Deprecated. Applies the given edge to the given vizmapper
boolean	applyVizMap(NodeView node_view) Deprecated. Applies the given node to the given vizmapper
boolean	applyVizMap(NodeView node_view, VisualStyle style) Deprecated. Applies the given node to the given vizmapper
void	applyVizmapper(VisualStyle style) Deprecated.
Object	getClientData(String data_name) Deprecated. Get Some client data
Collection	getClientDataNames() Deprecated. Get a list of all currently available ClientData objects
CyNetwork	getNetwork() Deprecated. DOCUMENT ME!
String	getTitle() Deprecated. DOCUMENT ME!
CyNetworkView	getView() Deprecated. DOCUMENT ME!
boolean	getVisualMapperEnabled() Deprecated. DOCUMENT ME!
VisualStyle	getVisualStyle() Deprecated. DOCUMENT ME!
VisualMappingManager	getVizMapManager() Deprecated. DOCUMENT ME!
VizMapUI	getVizMapUI() Deprecated. DOCUMENT ME!
void	putClientData(String data_name, Object data) Deprecated. Networks can support client data.
void	redrawGraph() Deprecated. DOCUMENT ME!
void	redrawGraph(boolean layout, boolean vizmap) Deprecated. DOCUMENT ME!
void	removeEdgeContextMenuListener(EdgeContextMenuListener l) Deprecated. DOCUMENT ME!
void	removeNodeContextMenuListener(NodeContextMenuListener l) Deprecated. DOCUMENT ME!
boolean	setSelected(CyEdge[] edges) Deprecated. Sets the Given edges Selected
boolean	setSelected(CyNode[] nodes) Deprecated. Sets the Given nodes Selected
boolean	setSelected(EdgeView[] edge_views) Deprecated. Sets the Given edges Selected
boolean	setSelected(NodeView[] node_views) Deprecated. Sets the Given nodes Selected
void	setTitle(String new_title) Deprecated. DOCUMENT ME!
void	setVisualMapperEnabled(boolean state) Deprecated. DOCUMENT ME!
void	setVisualStyle(String VSName) Deprecated. DOCUMENT ME!
void	toggleVisualMapperEnabled() Deprecated. DOCUMENT ME!
void	updateStatusLabel() Deprecated. Resets the info label status bar text with the current number of nodes, edges, selected nodes, and selected edges.

Methods inherited from class phoebe.PGraphView

addContextMethod, addEdgeView, addEdgeView, addGraphViewChangeListener, addNodeView, addNodeView, addNodeView, addToEdgeLayer, addToNodeLayer, disableEdgeSelection, disableNodeSelection, disablePanning, donePrinting, edgeCount, edgeSelected, edgeSelectionEnabled, edgeUnselected, enableEdgeSelection, enableNodeSelection, enablePanning, fitContent, getBackgroundPaint, getBirdsEyeView, getCanvas, getComponent, getContextMethods, getContextMethods, getEdgeHandler, getEdgeLayer, getEdgeSelectionHandler, getEdgeView, getEdgeView, getEdgeViewCount, getEdgeViewsIterator, getEdgeViewsList, getEdgeViewsList, getEdgeViewsList, getHeight, getIdentifier, getNodeLayer, getNodeView, getNodeView, getNodeViewCount, getNodeViewsIterator, getNodeViewsList, getObjectLayer, getRootGraph, getSelectedEdgeIndices, getSelectedEdges, getSelectedNodeIndices, getSelectedNodes, getSelectionHandler, getSquiggleHandler, getWidth, getZoom, hideEdgeView, hideGraphObject, hideGraphObjects, hideNodeView, hideNodeView, nodeCount, nodeSelected, nodeSelectionEnabled, nodeUnselected, openNodeEditor, prepareToPrint, removeEdgeView, removeEdgeView, removeEdgeView, removeGraphViewChangeListener, removeNodeView, removeNodeView, removeNodeView, setBackgroundPaint, setIdentifier, setZoom, showEdgeView, showGraphObject, showGraphObjects, showNodeView, showNodeView, updateView

Methods inherited from class coltginy.ColtGraphViewModel

getAllEdgePropertyData, getAllNodePropertyData, getEdgeBooleanProperty, getEdgeDoubleProperty, getEdgeFloatProperty, getEdgeIntProperty, getEdgeObjectProperty, getGraphPerspective, getNodeBooleanProperty, getNodeDoubleProperty, getNodeFloatProperty, getNodeIntProperty, getNodeObjectProperty, setAllEdgePropertyData, setAllNodePropertyData, setEdgeBooleanProperty, setEdgeDoubleProperty, setEdgeFloatProperty, setEdgeIntProperty, setEdgeObjectProperty, setNodeBooleanProperty, setNodeDoubleProperty, setNodeFloatProperty, setNodeIntProperty, setNodeObjectProperty

Methods inherited from class java.lang.Object

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

Methods inherited from interface giny.view.GraphView

addContextMethod, addEdgeView, addEdgeView, addGraphViewChangeListener, addNodeView, addNodeView, addNodeView, disableEdgeSelection, disableNodeSelection, edgeCount, edgeSelectionEnabled, enableEdgeSelection, enableNodeSelection, fitContent, getAllEdgePropertyData, getAllNodePropertyData, getBackgroundPaint, getComponent, getContextMethods, getContextMethods, getEdgeBooleanProperty, getEdgeDoubleProperty, getEdgeFloatProperty, getEdgeIntProperty, getEdgeObjectProperty, getEdgeView, getEdgeView, getEdgeViewCount, getEdgeViewsIterator, getEdgeViewsList, getEdgeViewsList, getEdgeViewsList, getGraphPerspective, getIdentifier, getNodeBooleanProperty, getNodeDoubleProperty, getNodeFloatProperty, getNodeIntProperty, getNodeObjectProperty, getNodeView, getNodeView, getNodeViewCount, getNodeViewsIterator, getRootGraph, getSelectedEdgeIndices, getSelectedEdges, getSelectedNodeIndices, getSelectedNodes, getZoom, hideGraphObject, hideGraphObjects, nodeCount, nodeSelectionEnabled, removeEdgeView, removeEdgeView, removeEdgeView, removeGraphViewChangeListener, removeNodeView, removeNodeView, removeNodeView, setAllEdgePropertyData, setAllNodePropertyData, setBackgroundPaint, setEdgeBooleanProperty, setEdgeDoubleProperty, setEdgeFloatProperty, setEdgeIntProperty, setEdgeObjectProperty, setIdentifier, setNodeBooleanProperty, setNodeDoubleProperty, setNodeFloatProperty, setNodeIntProperty, setNodeObjectProperty, setZoom, showGraphObject, showGraphObjects, updateView

Constructor Detail

PhoebeNetworkView

public PhoebeNetworkView(CyNetwork network,
                         String title)

Deprecated.

Creates a new PhoebeNetworkView object.

Parameters:

network - DOCUMENT ME!

title - DOCUMENT ME!

Method Detail

setVisualStyle

public void setVisualStyle(String VSName)

Deprecated.

DOCUMENT ME!

Specified by:

setVisualStyle in interface CyNetworkView

Parameters:

VSName - DOCUMENT ME!

getVisualStyle

public VisualStyle getVisualStyle()

Deprecated.

DOCUMENT ME!

Specified by:

getVisualStyle in interface CyNetworkView

Returns:

DOCUMENT ME!

getView

public CyNetworkView getView()

Deprecated.

DOCUMENT ME!

Specified by:

getView in interface CyNetworkView

Returns:

DOCUMENT ME!

getNetwork

public CyNetwork getNetwork()

Deprecated.

DOCUMENT ME!

Specified by:

getNetwork in interface CyNetworkView

Returns:

DOCUMENT ME!

getTitle

public String getTitle()

Deprecated.

DOCUMENT ME!

Specified by:

getTitle in interface CyNetworkView

Returns:

DOCUMENT ME!

setTitle

public void setTitle(String new_title)

Deprecated.

DOCUMENT ME!

Specified by:

setTitle in interface CyNetworkView

Parameters:

new_title - DOCUMENT ME!

redrawGraph

public void redrawGraph(boolean layout,
                        boolean vizmap)

Deprecated.

DOCUMENT ME!

Specified by:

redrawGraph in interface CyNetworkView

Parameters:

layout - DOCUMENT ME!

vizmap - DOCUMENT ME!

redrawGraph

public void redrawGraph()

Deprecated.

DOCUMENT ME!

toggleVisualMapperEnabled

public void toggleVisualMapperEnabled()

Deprecated.

DOCUMENT ME!

Specified by:

toggleVisualMapperEnabled in interface CyNetworkView

setVisualMapperEnabled

public void setVisualMapperEnabled(boolean state)

Deprecated.

DOCUMENT ME!

Specified by:

setVisualMapperEnabled in interface CyNetworkView

Parameters:

state - DOCUMENT ME!

getVisualMapperEnabled

public boolean getVisualMapperEnabled()

Deprecated.

DOCUMENT ME!

Specified by:

getVisualMapperEnabled in interface CyNetworkView

Returns:

DOCUMENT ME!

getVizMapManager

public VisualMappingManager getVizMapManager()

Deprecated.

DOCUMENT ME!

Specified by:

getVizMapManager in interface CyNetworkView

Returns:

DOCUMENT ME!

getVizMapUI

public VizMapUI getVizMapUI()

Deprecated.

DOCUMENT ME!

Specified by:

getVizMapUI in interface CyNetworkView

Returns:

DOCUMENT ME!

putClientData

public void putClientData(String data_name,
                          Object data)

Deprecated.

Networks can support client data.

Specified by:

putClientData in interface CyNetworkView

Parameters:

data_name - the name of this client data

getClientDataNames

public Collection getClientDataNames()

Deprecated.

Get a list of all currently available ClientData objects

Specified by:

getClientDataNames in interface CyNetworkView

getClientData

public Object getClientData(String data_name)

Deprecated.

Get Some client data

Specified by:

getClientData in interface CyNetworkView

Parameters:

data_name - the data to get

updateStatusLabel

public void updateStatusLabel()

Deprecated.

Resets the info label status bar text with the current number of nodes, edges, selected nodes, and selected edges.

applyVizMap

public boolean applyVizMap(CyEdge edge)

Deprecated.

Applies the given edge to the given vizmapper

Specified by:

applyVizMap in interface CyNetworkView

applyVizMap

public boolean applyVizMap(EdgeView edge_view)

Deprecated.

Applies the given edge to the given vizmapper

Specified by:

applyVizMap in interface CyNetworkView

applyVizMap

public boolean applyVizMap(CyEdge edge,
                           VisualStyle style)

Deprecated.

Applies the given edge to the given vizmapper

Specified by:

applyVizMap in interface CyNetworkView

applyVizMap

public boolean applyVizMap(EdgeView edge_view,
                           VisualStyle style)

Deprecated.

Applies the given edge to the given vizmapper

Specified by:

applyVizMap in interface CyNetworkView

applyVizMap

public boolean applyVizMap(CyNode node)

Deprecated.

Applies the given node to the given vizmapper

Specified by:

applyVizMap in interface CyNetworkView

applyVizMap

public boolean applyVizMap(NodeView node_view)

Deprecated.

Applies the given node to the given vizmapper

Specified by:

applyVizMap in interface CyNetworkView

applyVizMap

public boolean applyVizMap(CyNode node,
                           VisualStyle style)

Deprecated.

Applies the given node to the given vizmapper

Specified by:

applyVizMap in interface CyNetworkView

applyVizMap

public boolean applyVizMap(NodeView node_view,
                           VisualStyle style)

Deprecated.

Applies the given node to the given vizmapper

Specified by:

applyVizMap in interface CyNetworkView

applyVizmapper

public void applyVizmapper(VisualStyle style)

Deprecated.

Specified by:

applyVizmapper in interface CyNetworkView

Parameters:

style - the visual style

applyLayout

public void applyLayout(CyLayoutAlgorithm layout)

Deprecated.

Applies the given layout to the entire CyNetworkView

Specified by:

applyLayout in interface CyNetworkView

applyLockedLayout

public void applyLockedLayout(CyLayoutAlgorithm layout,
                              CyNode[] nodes,
                              CyEdge[] edges)

Deprecated.

Applies the given layout to the entire CyNetworkView, but locks the given Nodes and Edges in place

Specified by:

applyLockedLayout in interface CyNetworkView

applyLayout

public void applyLayout(CyLayoutAlgorithm layout,
                        CyNode[] nodes,
                        CyEdge[] edges)

Deprecated.

Applies the given layout to only the given Nodes and Edges

Specified by:

applyLayout in interface CyNetworkView

applyLockedLayout

public void applyLockedLayout(CyLayoutAlgorithm layout,
                              CyNodeView[] nodes,
                              CyEdgeView[] edges)

Deprecated.

Applies the given layout to the entire CyNetworkView, but locks the given NodeViews and EdgeViews in place

Specified by:

applyLockedLayout in interface CyNetworkView

applyLayout

public void applyLayout(CyLayoutAlgorithm layout,
                        CyNodeView[] nodes,
                        CyEdgeView[] edges)

Deprecated.

Applies the given layout to only the given NodeViews and EdgeViews

Specified by:

applyLayout in interface CyNetworkView

applyLockedLayout

public void applyLockedLayout(CyLayoutAlgorithm layout,
                              int[] nodes,
                              int[] edges)

Deprecated.

Applies the given layout to the entire CyNetworkView, but locks the given Nodes and Edges in place

Specified by:

applyLockedLayout in interface CyNetworkView

applyLayout

public void applyLayout(CyLayoutAlgorithm layout,
                        int[] nodes,
                        int[] edges)

Deprecated.

Applies the given layout to only the given Nodes and Edges

Specified by:

applyLayout in interface CyNetworkView

setSelected

public boolean setSelected(CyNode[] nodes)

Deprecated.

Sets the Given nodes Selected

Specified by:

setSelected in interface CyNetworkView

setSelected

public boolean setSelected(NodeView[] node_views)

Deprecated.

Sets the Given nodes Selected

Specified by:

setSelected in interface CyNetworkView

setSelected

public boolean setSelected(CyEdge[] edges)

Deprecated.

Sets the Given edges Selected

Specified by:

setSelected in interface CyNetworkView

setSelected

public boolean setSelected(EdgeView[] edge_views)

Deprecated.

Sets the Given edges Selected

Specified by:

setSelected in interface CyNetworkView

addNodeContextMenuListener

public void addNodeContextMenuListener(NodeContextMenuListener l)

Deprecated.

DOCUMENT ME!

Specified by:

addNodeContextMenuListener in interface CyNetworkView

Parameters:

l - DOCUMENT ME!

removeNodeContextMenuListener

public void removeNodeContextMenuListener(NodeContextMenuListener l)

Deprecated.

DOCUMENT ME!

Specified by:

removeNodeContextMenuListener in interface CyNetworkView

Parameters:

l - DOCUMENT ME!

addEdgeContextMenuListener

public void addEdgeContextMenuListener(EdgeContextMenuListener l)

Deprecated.

DOCUMENT ME!

Specified by:

addEdgeContextMenuListener in interface CyNetworkView

Parameters:

l - DOCUMENT ME!

removeEdgeContextMenuListener

public void removeEdgeContextMenuListener(EdgeContextMenuListener l)

Deprecated.

DOCUMENT ME!

Specified by:

removeEdgeContextMenuListener in interface CyNetworkView

Parameters:

l - DOCUMENT ME!