Package org.cytoscape.model

Interface CyTableManager

public interface CyTableManager

A singleton object for managing registered CyTables.

When a CyTable is created through a CyTableFactory, it exists independently from the rest of Cytoscape. However, when a CyTable is registered through the CyTableManager, CyTableManager does the following things for the CyTable:

• It fires the TableAddedEvent to inform other parts of Cytoscape that the CyTable was added to the CyTableManager.
• It also makes the CyTable available to other parts of Cytoscape through methods like getAllTables(boolean).
• Because registering the CyTable notifies Cytoscape about the CyTable, Cytoscape will ensure that the CyTable is saved (see CyTable.setSavePolicy(org.cytoscape.model.SavePolicy)). If the CyTable is not registered with the CyTableManager, it will not be saved according to its SavePolicy.

This interface, unfortunately, uses very confusing method names. Here is an explanation.

• Associated CyTables are explicitly mapped to CyNetwork, CyNodes, or CyEdges through the CyNetworkTableManager. Associated CyTables are obtained through getLocalTables(java.lang.Class<? extends org.cytoscape.model.CyIdentifiable>).
• Unassociated CyTables are not explicitly mapped to network objects. Note that columns in an unassociated table can still be "mapped" to network objects when an associated table has a virtual column from an unassociated table. Unassigned tables are obtained from getGlobalTables().

Module: model-api

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

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

Cytoscape Backwards Compatibility (API Interface): We expect that this interface will be used but not implemented by developers using this interface. As such, we reserve the right to add methods to the interface as part of minor version upgrades. We will not remove methods for any changes other than major version upgrades.

Method Summary

Modifier and Type	Method	Description
void	addTable(CyTable table)	Registers a new table with the manager and fires a TableAddedEvent event.
void	deleteTable(long suid)	Deletes a mutable table.
Set<CyTable>	getAllTables(boolean includePrivate)	Returns a Set of all tables with the specified visibility.
Set<CyTable>	getGlobalTables()	Returns a set of all global tables.
Set<CyTable>	getLocalTables(Class<? extends CyIdentifiable> type)	Returns set of all local tables for the given data type.
CyTable	getTable(long suid)	Returns the table with the specified SUID.
void	reset()	Releases all currently held references and resources.

Method Details

getAllTables

Set<CyTable> getAllTables(boolean includePrivate)

Returns a Set of all tables with the specified visibility.

Parameters:

includePrivate - Whether to include private CyTables in the list (i.e. all possible CyTables) or not.

Returns:

A Set containing CyTable SUIDs either including private CyTables (i.e. meaning all possible CyTables) or just public CyTables.

addTable

void addTable(CyTable table)

Registers a new table with the manager and fires a TableAddedEvent event.

Parameters:

table - a non-null CyTable that will be added to the manager

getTable

CyTable getTable(long suid)

Returns the table with the specified SUID.

Parameters:

suid - The SUID identifying the CyTable.

Returns:

The CyTable identified by the suid. Will return null if a CyTable doesn't exist for the specified SUID.

deleteTable

void deleteTable(long suid)

Deletes a mutable table.

Parameters:

suid - the SUID identifying the CyTable to be deleted

Throws:

IllegalArgumentException - if the table that we requested to be deleted is immutable or if any of its columns are virtual columns in other tables

reset

void reset()

Releases all currently held references and resources.

Cytoscape Backwards Compatibility (DO NOT USE): This method may change or be removed in future minor version upgrades of Cytoscape. It is not safe for Apps to call or override this method.

getGlobalTables

Set<CyTable> getGlobalTables()

Returns a set of all global tables. "Global tables" are tables that are not explicitly mapped to CyNetworks, CyNodes, and CyEdges. through CyNetworkTableManager.

Returns:

All registered global tables

getLocalTables

Set<CyTable> getLocalTables(Class<? extends CyIdentifiable> type)

Returns set of all local tables for the given data type. "Local tables" are tables that are explicitly mapped to CyNetworks, CyNodes, and CyEdges. This method has nothing to do with CyNetwork.LOCAL_ATTRS.

Parameters:

type - Type of the network object, i.e., CyNetwork.class, CyNode.class, or CyEdge.class.

Returns:

Set of all registered tables associated with the given data type.