Uses of Class
idare.Properties.IDARESettingsManager

Packages that use IDARESettingsManager

Package	Description
idare.imagenode.internal
idare.imagenode.internal.GUI.NetworkSetup.Tasks
idare.imagenode.internal.Layout.Manual.GUI.Tasks
idare.internal	This package contains the basic app object that is available to all parts of the app.
idare.Properties	This package contains Properties and Static Variables used in multiple parts of the IDARE App.
idare.sbmlannotator.internal.gpr
idare.sbmlannotator.internal.Tasks
idare.subnetwork.internal
idare.subnetwork.internal.Tasks.propertySelection
idare.subnetwork.internal.Tasks.SubsystemGeneration

Uses of IDARESettingsManager in idare.imagenode.internal

Methods in idare.imagenode.internal that return IDARESettingsManager

Modifier and Type	Method and Description
IDARESettingsManager	IDAREImageNodeApp.getSettingsManager() Get the IDARESettingsManager created by this App

Constructors in idare.imagenode.internal with parameters of type IDARESettingsManager

Constructor and Description
IDAREImageNodeApp(org.cytoscape.service.util.CyServiceRegistrar reg, IDARESettingsManager ism) Basic constructor that gets the IDareSettingsManager along with a CyServiceRegistrar to obtain all necessary services.

Uses of IDARESettingsManager in idare.imagenode.internal.GUI.NetworkSetup.Tasks

Fields in idare.imagenode.internal.GUI.NetworkSetup.Tasks declared as IDARESettingsManager

Modifier and Type	Field and Description
IDARESettingsManager	NetworkSetupProperties.mgr The managers necessary to keep track/update IDs etc pp

Constructors in idare.imagenode.internal.GUI.NetworkSetup.Tasks with parameters of type IDARESettingsManager

Constructor and Description
NetworkSetupGUIHandler(Field field, Object instance, org.cytoscape.work.Tunable tunable, IDARESettingsManager mgr, NodeManager nm, org.cytoscape.model.CyNetwork network)
NetworkSetupGUIHandler(Method getter, Method setter, Object instance, org.cytoscape.work.Tunable tunable, IDARESettingsManager mgr, NodeManager nm, org.cytoscape.model.CyNetwork network)
NetworkSetupGUIHandlerFactory(NodeManager nmgr, IDARESettingsManager idmgr, org.cytoscape.application.CyApplicationManager appmgr)

Uses of IDARESettingsManager in idare.imagenode.internal.Layout.Manual.GUI.Tasks

Constructors in idare.imagenode.internal.Layout.Manual.GUI.Tasks with parameters of type IDARESettingsManager

Constructor and Description
NetworkSetupGUIHandlerFactory(DataSetManager dsm, IDARESettingsManager idmgr, org.cytoscape.application.CyApplicationManager appmgr)

Uses of IDARESettingsManager in idare.internal

Methods in idare.internal that return IDARESettingsManager

Modifier and Type	Method and Description
IDARESettingsManager	IDAREApp.getSettingsManager() Get the IDARESettingsManager used in this app

Uses of IDARESettingsManager in idare.Properties

Methods in idare.Properties with parameters of type IDARESettingsManager

Modifier and Type	Method and Description
static void	IDARESettingsManager.SetNetworkData(org.cytoscape.model.CyNetwork network, IDARESettingsManager IDAREIdmgr, String NodeTypeCol, String IDCol, boolean overwrite, NodeManager nm) Set up the provided network using the Provided IDCol for the IDARE Names and the NodeTypesCol for the IDARE Node Types
static void	IDARESettingsManager.SetupNetwork(org.cytoscape.model.CyNetwork network, IDARESettingsManager IDAREIdmgr, String NodeTypeCol, String IDCol) Set up the provided network using the Provided IDCol for the IDARE Names and the NodeTypesCol for the IDARE Node Types

Uses of IDARESettingsManager in idare.sbmlannotator.internal.gpr

Constructors in idare.sbmlannotator.internal.gpr with parameters of type IDARESettingsManager

Constructor and Description
GPRManager(IDARESettingsManager ism)

Uses of IDARESettingsManager in idare.sbmlannotator.internal.Tasks

Constructors in idare.sbmlannotator.internal.Tasks with parameters of type IDARESettingsManager

Constructor and Description
SBMLAnnotatorTask(SBMLManagerHolder holder, org.cytoscape.model.CyNetwork network, org.cytoscape.view.model.CyNetworkView networkView, IDARESettingsManager ism, org.cytoscape.service.util.CyServiceRegistrar reg, SBMLDocument doc)
SBMLAnnotatorTaskFBC(SBMLManagerHolder holder, org.cytoscape.model.CyNetwork network, org.cytoscape.view.model.CyNetworkView networkView, IDARESettingsManager ism, org.cytoscape.service.util.CyServiceRegistrar reg, SBMLDocument doc)

Uses of IDARESettingsManager in idare.subnetwork.internal

Methods in idare.subnetwork.internal with parameters of type IDARESettingsManager

Modifier and Type	Method and Description
void	NetworkNode.setNetwork(org.cytoscape.model.CyNetwork network, IDARESettingsManager ism)
static void	SubNetworkUtils.setupNetworkForSubNetworkCreation(org.cytoscape.model.CyNetwork network, IDARESettingsManager Idmgr, String NodeTypeCol) Set up the Network for SubNetwork Generation, i.e.

Constructors in idare.subnetwork.internal with parameters of type IDARESettingsManager

Constructor and Description
NetworkNode(org.cytoscape.model.CyNetwork reference, IDARESettingsManager ism)
NetworkNode(NetworkNode parent, org.cytoscape.model.CyNetwork reference, String ColName, String networkID, IDARESettingsManager ism)
NetworkViewSwitcher(org.cytoscape.service.util.CyServiceRegistrar reg, IDARESettingsManager ism) Constructs a NetworkView Switcher for the current application.
SubnetworkSessionManager(NetworkViewSwitcher nvs, IDARESettingsManager iDAREIDMgr)

Uses of IDARESettingsManager in idare.subnetwork.internal.Tasks.propertySelection

Constructors in idare.subnetwork.internal.Tasks.propertySelection with parameters of type IDARESettingsManager

Constructor and Description
SubnetworkColumnPropertiesSelectionTask(org.cytoscape.service.util.CyServiceRegistrar reg, NetworkViewSwitcher nvs, IDARESettingsManager ism, SubnetworkCreationGUIHandlerFactory sncghf)

Uses of IDARESettingsManager in idare.subnetwork.internal.Tasks.SubsystemGeneration

Constructors in idare.subnetwork.internal.Tasks.SubsystemGeneration with parameters of type IDARESettingsManager

Constructor and Description
SubnetworkCreationTask(org.cytoscape.service.util.CyServiceRegistrar reg, NetworkViewSwitcher nvs, IDARESettingsManager ism) Default constructor
SubnetworkCreatorTaskFactory(org.cytoscape.service.util.CyServiceRegistrar reg, NetworkViewSwitcher nvs, IDARESettingsManager ism, SubnetworkCreationGUIHandlerFactory sncghf)