Package org.cytoscape.view.layout

Class AbstractParallelPartitionLayoutTask

java.lang.Object

org.cytoscape.work.AbstractTask

org.cytoscape.view.layout.AbstractLayoutTask

org.cytoscape.view.layout.AbstractPartitionLayoutTask

org.cytoscape.view.layout.AbstractParallelPartitionLayoutTask

All Implemented Interfaces:

Task

public abstract class AbstractParallelPartitionLayoutTask
extends AbstractPartitionLayoutTask

This is an even more helpful implementation of a LayoutAlgorithm Task that extends AbstractPartitionLayoutTask and does the work of partitioning the CyNetworkView so that partitions may be laid out individually. The layout is applied to multiple partitions in parallel. Extensions of this class are meant to implement the layoutPartition() method and operate on the LayoutParition object that is passed to that method as an argument. Extensions should also make sure everything is thread-safe.

Cytoscape Backwards Compatibility (Abstract Class): This class is abstract and meant to be extended by users. This means that we may add methods for minor version updates. Methods will only be removed for major version updates.

Module: layout-api

To use this in your app, include the following dependency in your POM:

<dependency>
    <groupId>org.cytoscape</groupId>
    <artifactId>layout-api</artifactId>
</dependency>

Field Summary

Fields inherited from class org.cytoscape.view.layout.AbstractPartitionLayoutTask

current_size, current_start, edgeWeighter, incr, logger, partitionList, taskMonitor, total_nodes

Fields inherited from class org.cytoscape.view.layout.AbstractLayoutTask

LAYOUT_ALGORITHM, layoutAttribute, networkView, nodesToLayOut, recenter, undo

Fields inherited from class org.cytoscape.work.AbstractTask

cancelled

Constructor Summary

Constructors

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

Method Summary

Modifier and Type	Method	Description
void	doLayout(TaskMonitor taskMonitor)	AbstractGraphPartitionLayout implements the doLayout method of AbstractBasicLayout in which it calls the layoutParition method on each LayoutPartition object created for the network.

Methods inherited from class org.cytoscape.view.layout.AbstractPartitionLayoutTask

calculate_max_dimension, layoutPartition, setTaskStatus

Methods inherited from class org.cytoscape.view.layout.AbstractLayoutTask

run

Methods inherited from class org.cytoscape.work.AbstractTask

cancel, getTaskIterator, insertTasksAfterCurrentTask, insertTasksAfterCurrentTask, setTaskIterator

Methods inherited from class java.lang.Object

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

Constructor Details

AbstractParallelPartitionLayoutTask

public AbstractParallelPartitionLayoutTask(String displayName,
 boolean singlePartition,
 CyNetworkView networkView,
 Set<View<CyNode>> nodesToLayOut,
 String layoutAttribute,
 UndoSupport undo)

Creates a new AbstractPartitionLayoutTask object.

Parameters:

name - The name of the layout algorithm.

singlePartition - Whether this layout algorithm should execute on a single partition instead of multiple partitions.

networkView - the CyNetworkView being partitioned.

nodesToLayOut - the set of nodes to layout.

layoutAttribute - the name of the attribute to use for this layout. Allowed to be empty or null.

Method Details

doLayout

public void doLayout(TaskMonitor taskMonitor)

AbstractGraphPartitionLayout implements the doLayout method of AbstractBasicLayout in which it calls the layoutParition method on each LayoutPartition object created for the network.

Overrides:

doLayout in class AbstractPartitionLayoutTask

Parameters:

taskMonitor - the TaskMonitor provided by the run() method of the Task.