Uses of Interface
org.cytoscape.view.model.CyNetworkView

Packages that use CyNetworkView

org.cytoscape.application	This package provides Cytoscape version number, application-wide setting, basic access to current network, selected networks, views and rendering engines.
org.cytoscape.application.events	This package provides application events/listeners, including Cytoscape startup/shutdown, setCurrentNetwork/setCurrentNetworkView/ setSelectedNetwork.
org.cytoscape.application.swing	This package defines the various interfaces, abstract classes, and enums that represent the Cytoscape Swing Application API.
org.cytoscape.io.read	Handle importing Cytoscape data (network, attributes, session, properties, etc) from files/URLs.
org.cytoscape.io.write	This package provides factory interfaces to be used by anyone wishing to provide export or writing capabilities to the rest of Cytoscape.
org.cytoscape.session	This package contains the interfaces and classes necessary to capturing, storing, and retrieving the state of a Cytoscape session.
org.cytoscape.task	This package provides base classes for common task factory types as well as their associated task types found in Cytoscape.
org.cytoscape.task.create	This package provides a variety of task factory interfaces for creating new instances of network and other objects.
org.cytoscape.task.write	This package contains a set of task factory interfaces used for exporting or writing a variety of Cytoscape objects to files.
org.cytoscape.view.layout	This package provides access to the available layout algorithms, as well as provides abstract layout classes and layout information containers for the convenience of implementing other layout algorithms.
org.cytoscape.view.model	Module for View Models and Visual Properties.
org.cytoscape.view.model.events	Definitions for View-Model related events and their listeners.
org.cytoscape.view.presentation.customgraphics	This package provides an API for augmenting a RenderingEngines node rendering with custom graphics.
org.cytoscape.view.presentation.property.values	Interfaces for VisualPropertyValues -- ArrowShape, LineType and NodeShape
org.cytoscape.view.vizmap	Visual Mapping basic API module.
org.cytoscape.view.vizmap.events	Events for Visual Mappings.

Uses of CyNetworkView in org.cytoscape.application

Methods in org.cytoscape.application that return CyNetworkView

CyNetworkView

CyApplicationManager.getCurrentNetworkView() Returns the current network view.

Methods in org.cytoscape.application that return types with arguments of type CyNetworkView

List<CyNetworkView>

CyApplicationManager.getSelectedNetworkViews() Returns the list of selected network views.

Methods in org.cytoscape.application with parameters of type CyNetworkView

void	CyApplicationManager.setCurrentNetworkView(CyNetworkView netView) Sets the current network view to the specified network view.

Method parameters in org.cytoscape.application with type arguments of type CyNetworkView

void	CyApplicationManager.setSelectedNetworkViews(List<CyNetworkView> views) Sets the specified network views as selected.

Uses of CyNetworkView in org.cytoscape.application.events

Methods in org.cytoscape.application.events that return CyNetworkView

CyNetworkView

SetCurrentNetworkViewEvent.getNetworkView() Returns the network view associated with this event.

Methods in org.cytoscape.application.events that return types with arguments of type CyNetworkView

List<CyNetworkView>

SetSelectedNetworkViewsEvent.getNetworkViews() Returns the list of network views that have been selected.

Constructors in org.cytoscape.application.events with parameters of type CyNetworkView

SetCurrentNetworkViewEvent(CyApplicationManager source, CyNetworkView view)
Constructor.

Constructor parameters in org.cytoscape.application.events with type arguments of type CyNetworkView

SetSelectedNetworkViewsEvent(CyApplicationManager source, List<CyNetworkView> views)
Constructor.

Uses of CyNetworkView in org.cytoscape.application.swing

Methods in org.cytoscape.application.swing with parameters of type CyNetworkView

CyMenuItem	CyNetworkViewContextMenuFactory.createMenuItem(CyNetworkView netView) This method should return a CyMenuItem to be added to the context menu of the specified network view.
CyMenuItem	CyEdgeViewContextMenuFactory.createMenuItem(CyNetworkView netView, View<CyEdge> edgeView) This method should return a CyMenuItem to be added to the context menu of the specified edge view.
CyMenuItem	CyNodeViewContextMenuFactory.createMenuItem(CyNetworkView netView, View<CyNode> nodeView) This method should return a CyMenuItem to be added to the context menu of the specified node view.

Uses of CyNetworkView in org.cytoscape.io.read

Methods in org.cytoscape.io.read that return CyNetworkView

CyNetworkView

CyNetworkReader.buildCyNetworkView(CyNetwork network) A method to build a CyNetworkView from one of the networks just read.

Uses of CyNetworkView in org.cytoscape.io.write

Methods in org.cytoscape.io.write with parameters of type CyNetworkView

CyWriter	CyNetworkViewWriterFactory.createWriter(OutputStream os, CyNetworkView view) Creates a single Task that will write the specified network to the specified OutputStream.
CyWriter	CyNetworkViewWriterManager.getWriter(CyNetworkView view, CyFileFilter filter, File file) Returns the CyWriter Task that will attempt to write the specified view to the specified file of the specified file type.
CyWriter	CyNetworkViewWriterManager.getWriter(CyNetworkView view, CyFileFilter filter, OutputStream os) Returns the CyWriter Task that will attempt to write the specified view to the specified output steam of the specified file type.

Uses of CyNetworkView in org.cytoscape.session

Methods in org.cytoscape.session that return types with arguments of type CyNetworkView

Set<CyNetworkView>	CySession.getNetworkViews() Returns a set of all CyNetworkView objects contained in this Session.
Map<CyNetworkView,String>	CySession.getViewVisualStyleMap() Returns a map of CyNetworkViews to the names of the VisualStyle applied to that network view in this session.

Method parameters in org.cytoscape.session with type arguments of type CyNetworkView

CySession.Builder	CySession.Builder.networkViews(Set<CyNetworkView> views) Returns an instance of Builder that has at least been configured with the specified network views.
CySession.Builder	CySession.Builder.viewVisualStyleMap(Map<CyNetworkView,String> vs) Returns an instance of Builder that has at least been configured with the specified network view visual style name map.

Uses of CyNetworkView in org.cytoscape.task

Fields in org.cytoscape.task declared as CyNetworkView

protected CyNetworkView	AbstractNodeViewTask.netView The network view that descendants of this class will operate on.
protected CyNetworkView	AbstractEdgeViewTask.netView The network view associated with AbstractEdgeViewTask.edgeView.
protected CyNetworkView	AbstractNetworkViewTask.view The network view that descendants of this class will operate on.

Fields in org.cytoscape.task with type parameters of type CyNetworkView

protected Collection<CyNetworkView>

AbstractNetworkViewCollectionTask.networkViews A collection of network views to operate on for any descendants of this class.

Methods in org.cytoscape.task with parameters of type CyNetworkView

TaskIterator	NetworkViewTaskFactory.createTaskIterator(CyNetworkView networkView) Creates a new TaskIterator using the given CyNetworkView
TaskIterator	NetworkViewLocationTaskFactory.createTaskIterator(CyNetworkView networkView, Point2D javaPt, Point2D xformPt) Creates a task iterator using the specified network view and points.
TaskIterator	EdgeViewTaskFactory.createTaskIterator(View<CyEdge> edgeView, CyNetworkView networkView) Creates a new TaskIterator using the given edge view and network view.
TaskIterator	NodeViewTaskFactory.createTaskIterator(View<CyNode> nodeView, CyNetworkView networkView) Provisions this factory with the node view and its associated network view, both of which will be passed into any task that will be created by this factory.
boolean	NetworkViewTaskFactory.isReady(CyNetworkView networkView) Returns true if this task factory is ready to produce a TaskIterator.
boolean	AbstractNetworkViewTaskFactory.isReady(CyNetworkView networkView) Returns true if the supplied network view is not null.
boolean	NetworkViewLocationTaskFactory.isReady(CyNetworkView networkView, Point2D javaPt, Point2D xformPt) Returns true if this task factory is ready to produce a TaskIterator.
boolean	AbstractNetworkViewLocationTaskFactory.isReady(CyNetworkView networkView, Point2D javaPt, Point2D xformPt) Returns true if the supplied view and coordinates are not null.
boolean	EdgeViewTaskFactory.isReady(View<CyEdge> edgeView, CyNetworkView networkView) Returns true if this task factory is ready to produce a TaskIterator.
boolean	AbstractEdgeViewTaskFactory.isReady(View<CyEdge> edgeView, CyNetworkView networkView) Returns true if the supplied edge and network views are not null.
boolean	NodeViewTaskFactory.isReady(View<CyNode> nodeView, CyNetworkView networkView) Returns true if the node view and network view are in a state that is ready to be processed by the generated tasks and false otherwise.
boolean	AbstractNodeViewTaskFactory.isReady(View<CyNode> nodeView, CyNetworkView networkView) Returns true of the supplied network and node views are not null.

Method parameters in org.cytoscape.task with type arguments of type CyNetworkView

TaskIterator	NetworkViewCollectionTaskFactory.createTaskIterator(Collection<CyNetworkView> networkViews) Provisions this factory with the collection of network views that will be passed into any task created by it.
boolean	NetworkViewCollectionTaskFactory.isReady(Collection<CyNetworkView> networkViews) Returns true if this task factory is ready to produce a TaskIterator.
boolean	AbstractNetworkViewCollectionTaskFactory.isReady(Collection<CyNetworkView> networkViews) Returns true if the supplied collection is not null.

Constructors in org.cytoscape.task with parameters of type CyNetworkView

AbstractEdgeViewTask(View<CyEdge> edgeView, CyNetworkView netView)
Base constructor for all tasks that need an edge view to operate on.

AbstractNetworkViewTask(CyNetworkView view)
A base class for tasks that need to operate on a network view.

AbstractNodeViewTask(View<CyNode> nodeView, CyNetworkView netView)
Base class constructor for all tasks that need to operate on a node view and possibly its associated network view.

Constructor parameters in org.cytoscape.task with type arguments of type CyNetworkView

AbstractNetworkViewCollectionTask(Collection<CyNetworkView> networkViews)
Base class for any tasks that need to operate on a collection of network views.

Uses of CyNetworkView in org.cytoscape.task.create

Methods in org.cytoscape.task.create that return CyNetworkView

CyNetworkView

NewEmptyNetworkViewFactory.createNewEmptyNetworkView() Returns a new, empty CyNetworkView.

Uses of CyNetworkView in org.cytoscape.task.write

Methods in org.cytoscape.task.write with parameters of type CyNetworkView

TaskIterator

ExportNetworkViewTaskFactory.createTaskIterator(CyNetworkView view, File file) Creates the task iterator for exporting network views.

Uses of CyNetworkView in org.cytoscape.view.layout

Fields in org.cytoscape.view.layout declared as CyNetworkView

protected CyNetworkView

AbstractLayoutTask.networkView The network view that the layout will be applied to.

Methods in org.cytoscape.view.layout with parameters of type CyNetworkView

TaskIterator	CyLayoutAlgorithm.createTaskIterator(CyNetworkView networkView, Object layoutContext, Set<View<CyNode>> nodesToLayOut, String layoutAttribute) Creates a task iterator containing the layout tasks.
boolean	CyLayoutAlgorithm.isReady(CyNetworkView networkView, Object layoutContext, Set<View<CyNode>> nodesToLayOut, String layoutAttribute) Returns true if the task factory is ready to produce a task iterator.
boolean	AbstractLayoutAlgorithm.isReady(CyNetworkView view, Object tunableContext, Set<View<CyNode>> nodesToLayout, String attributeName)
static List<LayoutPartition>	PartitionUtil.partition(CyNetworkView networkView, boolean selectedOnly, EdgeWeighter edgeWeighter) Partition the graph -- this builds the LayoutEdge and LayoutNode arrays as a byproduct.
static List<LayoutPartition>	PartitionUtil.partition(CyNetworkView networkView, Collection<CyNode> nodeSet, EdgeWeighter edgeWeighter) Partition the graph -- this builds the LayoutEdge and LayoutNode arrays as a byproduct.

Constructors in org.cytoscape.view.layout with parameters of type CyNetworkView

AbstractLayoutTask(String displayName, CyNetworkView networkView, Set<View<CyNode>> nodesToLayOut, String layoutAttribute, UndoSupport undo)
Constructor.

AbstractPartitionLayoutTask(String displayName, boolean singlePartition, CyNetworkView networkView, Set<View<CyNode>> nodesToLayOut, String layoutAttribute, UndoSupport undo)
Creates a new AbstractPartitionLayoutTask object.

LayoutEdit(String name, CyNetworkView view)
Constructor.

LayoutPartition(CyNetworkView networkView, Collection<View<CyNode>> nodeSet, EdgeWeighter edgeWeighter)
LayoutPartition: use this constructor to create a LayoutPartition that includes the entire network.

Uses of CyNetworkView in org.cytoscape.view.model

Methods in org.cytoscape.view.model that return CyNetworkView

CyNetworkView

CyNetworkViewFactory.createNetworkView(CyNetwork network) Create a CyNetworkView from a CyNetwork object.

Methods in org.cytoscape.view.model that return types with arguments of type CyNetworkView

Collection<CyNetworkView>	CyNetworkViewManager.getNetworkViews(CyNetwork network) Returns a collection of network views corresponding to the specified network, if found.
Set<CyNetworkView>	CyNetworkViewManager.getNetworkViewSet() Provides the set of network views that are currently known to the network manager.

Methods in org.cytoscape.view.model with parameters of type CyNetworkView

void	CyNetworkViewManager.addNetworkView(CyNetworkView view) Registers a network view with the network view manager.
void	CyNetworkViewManager.destroyNetworkView(CyNetworkView view) Destroys a network view.

Uses of CyNetworkView in org.cytoscape.view.model.events

Constructors in org.cytoscape.view.model.events with parameters of type CyNetworkView

AboutToRemoveEdgeViewsEvent(CyNetworkView source, Collection<View<CyEdge>> payload)
Creates the event for about to be removed edge views.

AboutToRemoveNodeViewsEvent(CyNetworkView source, Collection<View<CyNode>> payload)
Creates the event for about to be removed node views.

AddedEdgeViewsEvent(CyNetworkView source, Collection<View<CyEdge>> edgeViews)
Creates the event for new edge views.

AddedNodeViewsEvent(CyNetworkView source, Collection<View<CyNode>> nodeViews)
Creates the event for a new node view.

FitContentEvent(CyNetworkView source)
Fit the size of network view to the current container.

FitSelectedEvent(CyNetworkView source)
Fit the selected part of network view to the container.

NetworkViewAboutToBeDestroyedEvent(CyNetworkViewManager source, CyNetworkView view)
Creates the event for network views that are about to be destroyed.

NetworkViewAddedEvent(CyNetworkViewManager source, CyNetworkView view)
Creates the event for network views that are added.

UpdateNetworkPresentationEvent(CyNetworkView source)
Event for updating (redrawing) presentation.

Uses of CyNetworkView in org.cytoscape.view.presentation.customgraphics

Methods in org.cytoscape.view.presentation.customgraphics with parameters of type CyNetworkView

List<T>

CyCustomGraphics.getLayers(CyNetworkView networkView, View<? extends CyIdentifiable> grView) Get layers that belong to this object.

Uses of CyNetworkView in org.cytoscape.view.presentation.property.values

Methods in org.cytoscape.view.presentation.property.values with parameters of type CyNetworkView

Point2D	Handle.calculateHandleLocation(CyNetworkView netView, View<CyEdge> edgeView) Calculate absolute position of this handle for the given edge view.
Handle	HandleFactory.createHandle(CyNetworkView graphView, View<CyEdge> view, double x, double y) Creates a new instance of the Handle.
void	Handle.defineHandle(CyNetworkView netView, View<CyEdge> edgeView, double x, double y) Define this handle.

Uses of CyNetworkView in org.cytoscape.view.vizmap

Methods in org.cytoscape.view.vizmap with parameters of type CyNetworkView

void	VisualStyle.apply(CyNetworkView networkView) Apply Visual Style to the entire network view.
VisualStyle	VisualMappingManager.getVisualStyle(CyNetworkView networkViewModel) Returns the VisualStyle associated with the target network view model.
void	VisualMappingManager.setVisualStyle(VisualStyle visualStyle, CyNetworkView networkViewModel) Set a VisualStyle to the target network view model.

Uses of CyNetworkView in org.cytoscape.view.vizmap.events

Methods in org.cytoscape.view.vizmap.events that return CyNetworkView

CyNetworkView

VisualStyleSetEvent.getNetworkView() Get the The target network view model.

Constructors in org.cytoscape.view.vizmap.events with parameters of type CyNetworkView

VisualStyleSetEvent(VisualMappingManager source, VisualStyle style, CyNetworkView view)
Creates the event.