Hierarchy For All Packages

Package Hierarchies:

• idare.imagenode,
• idare.imagenode.ColorManagement,
• idare.imagenode.ColorManagement.ColorMapTypes,
• idare.imagenode.Data.BasicDataTypes.ArrayData,
• idare.imagenode.Data.BasicDataTypes.MultiArrayData,
• idare.imagenode.exceptions.io,
• idare.imagenode.exceptions.layout,
• idare.imagenode.GUI.Legend.Utilities,
• idare.imagenode.Interfaces.DataSetReaders,
• idare.imagenode.Interfaces.DataSetReaders.WorkBook,
• idare.imagenode.Interfaces.DataSetReaders.WorkBook.BasicImplementation,
• idare.imagenode.Interfaces.DataSets,
• idare.imagenode.Interfaces.Layout,
• idare.imagenode.Interfaces.Plugin,
• idare.imagenode.internal,
• idare.imagenode.internal.ColorManagement.ColorScales,
• idare.imagenode.internal.Data.Array.CircleData,
• idare.imagenode.internal.Data.Array.CircleGridData,
• idare.imagenode.internal.Data.Array.RectangleData,
• idare.imagenode.internal.Data.Array.TimeSeriesData,
• idare.imagenode.internal.Data.MultiArray.GraphData,
• idare.imagenode.internal.Data.MultiArray.IndividualGraph,
• idare.imagenode.internal.Data.MultiArray.ScatterData,
• idare.imagenode.internal.DataManagement,
• idare.imagenode.internal.DataManagement.Events,
• idare.imagenode.internal.DataSetReaders,
• idare.imagenode.internal.DataSetReaders.CSVReader,
• idare.imagenode.internal.DataSetReaders.POIReader,
• idare.imagenode.internal.Debug,
• idare.imagenode.internal.exceptions.debug,
• idare.imagenode.internal.GUI.DataSetAddition,
• idare.imagenode.internal.GUI.DataSetAddition.Tasks,
• idare.imagenode.internal.GUI.DataSetController,
• idare.imagenode.internal.GUI.Legend,
• idare.imagenode.internal.GUI.Legend.Tasks,
• idare.imagenode.internal.GUI.NetworkSetup,
• idare.imagenode.internal.GUI.NetworkSetup.Tasks,
• idare.imagenode.internal.ImageManagement,
• idare.imagenode.internal.Layout,
• idare.imagenode.internal.Layout.Automatic,
• idare.imagenode.internal.Layout.io,
• idare.imagenode.internal.Layout.Manual,
• idare.imagenode.internal.Layout.Manual.GUI,
• idare.imagenode.internal.Layout.Manual.GUI.Tasks,
• idare.imagenode.internal.Layout.Manual.Utilities,
• idare.imagenode.internal.Services,
• idare.imagenode.internal.Services.JSBML,
• idare.imagenode.internal.Services.POI,
• idare.imagenode.internal.VisualStyle,
• idare.imagenode.internal.VisualStyle.Tasks,
• idare.imagenode.Properties,
• idare.imagenode.Utilities,
• idare.imagenode.Utilities.GUI,
• idare.internal,
• idare.NodeDuplicator.Internal,
• idare.NodeDuplicator.Internal.Tasks,
• idare.Properties,
• idare.sbmlannotator.internal,
• idare.sbmlannotator.internal.gpr,
• idare.sbmlannotator.internal.Tasks,
• idare.subnetwork.internal,
• idare.subnetwork.internal.GUI,
• idare.subnetwork.internal.Tasks,
• idare.subnetwork.internal.Tasks.propertySelection,
• idare.subnetwork.internal.Tasks.SubsystemGeneration,
• idare.ThirdParty

Class Hierarchy

• java.lang.Object
  • idare.imagenode.Data.BasicDataTypes.ArrayData.AbstractArrayContainer (implements idare.imagenode.Interfaces.DataSets.DataContainer)
    • idare.imagenode.internal.Data.Array.CircleData.CircleContainer
    • idare.imagenode.internal.Data.Array.RectangleData.RectangleContainer
  • idare.imagenode.Data.BasicDataTypes.ArrayData.AbstractArrayContainerLayout.ShapePosition (implements java.io.Serializable)
    • idare.imagenode.Data.BasicDataTypes.ArrayData.AbstractArrayContainerLayout.LegendShapePosition
    • idare.imagenode.internal.Data.Array.RectangleData.RectangleContainerLayout.RectangleShapePosition
      • idare.imagenode.internal.Data.Array.RectangleData.RectangleContainerLayout.RectangleLegendShapePosition
  • org.cytoscape.service.util.AbstractCyActivator (implements org.osgi.framework.BundleActivator)
    • idare.internal.CyActivator
  • org.cytoscape.work.undo.AbstractCyEdit
    • idare.NodeDuplicator.Internal.NodeDuplicatorImpl (implements org.cytoscape.work.Task)
    • idare.NodeDuplicator.Internal.NodeMergerImpl (implements org.cytoscape.work.Task)
  • org.cytoscape.task.AbstractNodeViewTaskFactory (implements org.cytoscape.task.NodeViewTaskFactory)
    • idare.subnetwork.internal.NetworkViewSwitcher (implements org.cytoscape.model.events.NetworkAboutToBeDestroyedListener, org.cytoscape.model.events.RowsSetListener, org.cytoscape.session.events.SessionAboutToBeSavedListener)
  • javax.swing.table.AbstractTableModel (implements java.io.Serializable, javax.swing.table.TableModel)
    • javax.swing.table.DefaultTableModel (implements java.io.Serializable)
      • idare.imagenode.internal.GUI.DataSetController.DataSetSelectionModel (implements idare.imagenode.internal.DataManagement.Events.DataSetChangeListener)
  • org.cytoscape.work.AbstractTask (implements org.cytoscape.work.Task)
    • idare.imagenode.internal.Layout.Manual.GUI.Tasks.AddDataSetToManuaLayoutTask
    • idare.imagenode.internal.GUI.Legend.Tasks.CreateNodeImageTask
    • idare.imagenode.internal.GUI.DataSetAddition.Tasks.DataSetAdderTask (implements org.cytoscape.work.swing.RequestsUIHelper, org.cytoscape.work.TaskObserver)
    • idare.imagenode.internal.GUI.DataSetAddition.Tasks.FailureTask
    • idare.imagenode.internal.GUI.NetworkSetup.Tasks.NetworkSetupTask (implements org.cytoscape.work.swing.RequestsUIHelper)
    • idare.subnetwork.internal.NetworkViewSwitchTask
    • idare.imagenode.internal.GUI.DataSetAddition.Tasks.ObservableIDARETask (implements org.cytoscape.work.ObservableTask)
      • idare.imagenode.internal.GUI.DataSetAddition.Tasks.AddDataSetToManagerTask
      • idare.imagenode.internal.GUI.DataSetAddition.Tasks.IDAREReaderTask
      • idare.imagenode.internal.GUI.DataSetAddition.Tasks.ReadWorkBookTask
    • idare.sbmlannotator.internal.SBMLAnnotaterTask
    • idare.sbmlannotator.internal.Tasks.SBMLAnnotatorTask (implements org.cytoscape.work.swing.RequestsUIHelper)
      • idare.sbmlannotator.internal.Tasks.SBMLAnnotatorTaskFBC
    • idare.sbmlannotator.internal.Tasks.SBMLDocumentSelectionTask
    • idare.subnetwork.internal.Tasks.propertySelection.SubnetworkColumnPropertiesSelectionTask (implements org.cytoscape.work.swing.RequestsUIHelper)
    • idare.subnetwork.internal.Tasks.SubsystemGeneration.SubnetworkCreationTask (implements org.cytoscape.work.swing.RequestsUIHelper)
  • org.cytoscape.work.AbstractTaskFactory (implements org.cytoscape.work.TaskFactory)
    • idare.imagenode.internal.VisualStyle.Tasks.AddNodesToStyleTaskFactory (implements org.cytoscape.task.NetworkViewTaskFactory)
    • idare.imagenode.internal.GUI.Legend.Tasks.CreateNodeImagesTaskFactory (implements org.cytoscape.task.NetworkViewTaskFactory)
    • idare.imagenode.internal.GUI.DataSetController.CreateNodesTaskFactory
    • idare.imagenode.internal.GUI.DataSetAddition.Tasks.DataSetAdderTaskFactory
    • idare.imagenode.internal.GUI.NetworkSetup.Tasks.NetworkSetupTaskFactory (implements org.cytoscape.task.NetworkViewTaskFactory)
    • idare.imagenode.internal.VisualStyle.Tasks.RemoveNodesFromStyleTaskFactory (implements org.cytoscape.task.NetworkViewTaskFactory)
    • idare.sbmlannotator.internal.SBMLAnnotationTaskFactory (implements org.cytoscape.task.NetworkViewTaskFactory)
    • idare.sbmlannotator.internal.Tasks.SBMLAnnotatorTaskFactory (implements org.cytoscape.task.NetworkViewTaskFactory)
    • idare.subnetwork.internal.Tasks.SubsystemGeneration.SubnetworkCreatorTaskFactory (implements org.cytoscape.task.NetworkViewTaskFactory)
  • org.cytoscape.work.AbstractTunableHandler (implements org.cytoscape.work.TunableHandler)
    • org.cytoscape.work.swing.AbstractGUITunableHandler (implements org.cytoscape.work.swing.GUITunableHandler)
      • idare.imagenode.internal.GUI.DataSetAddition.DataSetParametersGUIHandler
      • idare.imagenode.internal.Layout.Manual.GUI.Tasks.LayoutPropertiesGUIHandler
      • idare.imagenode.internal.GUI.NetworkSetup.Tasks.NetworkSetupGUIHandler
      • idare.subnetwork.internal.Tasks.SubsystemGeneration.SubnetworkCreationGUIHandler
      • idare.subnetwork.internal.Tasks.propertySelection.SubnetworkPropertyColumnGUIHandler
  • idare.imagenode.internal.ImageManagement.ActiveNodeManager (implements org.cytoscape.view.vizmap.events.VisualStyleSetListener)
  • idare.imagenode.internal.Services.JSBML.Annotation
  • idare.imagenode.internal.Services.JSBML.Association
    • idare.imagenode.internal.Services.JSBML.And
    • idare.imagenode.internal.Services.JSBML.GeneProductRef
    • idare.imagenode.internal.Services.JSBML.Or
  • idare.imagenode.internal.Layout.Automatic.AutomaticNodeLayout (implements idare.imagenode.internal.IDAREService, idare.imagenode.internal.Layout.ImageNodeLayout)
  • idare.imagenode.Interfaces.DataSetReaders.WorkBook.BasicImplementation.BasicIDARECell (implements idare.imagenode.Interfaces.DataSetReaders.WorkBook.IDARECell)
  • idare.imagenode.Interfaces.DataSetReaders.WorkBook.BasicImplementation.BasicIDARERow (implements idare.imagenode.Interfaces.DataSetReaders.WorkBook.IDARERow)
  • idare.imagenode.Interfaces.DataSetReaders.WorkBook.BasicImplementation.BasicIDARESheet (implements idare.imagenode.Interfaces.DataSetReaders.WorkBook.IDARESheet)
  • idare.imagenode.Interfaces.DataSetReaders.WorkBook.BasicImplementation.BasicIDAREWorkbook (implements idare.imagenode.Interfaces.DataSetReaders.WorkBook.IDAREWorkbook)
  • idare.ThirdParty.BoundsPopupMenuListener (implements javax.swing.event.PopupMenuListener)
    • idare.imagenode.Utilities.ColorScalePopupAdjuster
  • idare.ThirdParty.CobraUtil
  • idare.imagenode.ColorManagement.ColorMap (implements java.io.Serializable)
    • idare.imagenode.ColorManagement.ColorMapTypes.ContinousColorMap
      • idare.imagenode.ColorManagement.ColorMapTypes.ContinousZeroBalancedMap
    • idare.imagenode.ColorManagement.ColorMapTypes.DiscreteColorMap
  • idare.imagenode.ColorManagement.ColorScaleFactory
  • idare.imagenode.internal.ColorManagement.ColorScales.ColorScaleProperties
  • idare.imagenode.ColorManagement.ColorUtils
  • java.awt.Component (implements java.awt.image.ImageObserver, java.awt.MenuContainer, java.io.Serializable)
    • java.awt.Container
      • idare.imagenode.internal.Layout.Automatic.ImageBag
      • javax.swing.JComponent (implements java.io.Serializable)
        • javax.swing.AbstractButton (implements java.awt.ItemSelectable, javax.swing.SwingConstants)
          • javax.swing.JMenuItem (implements javax.accessibility.Accessible, javax.swing.MenuElement)
            • idare.imagenode.internal.Layout.Manual.GUI.ColorMenuItem
            • javax.swing.JMenu (implements javax.accessibility.Accessible, javax.swing.MenuElement)
              • idare.imagenode.internal.Layout.Manual.GUI.DatasetMenu (implements java.awt.event.ActionListener, javax.swing.event.MenuListener)
        • org.apache.batik.swing.gvt.JGVTComponent
          • org.apache.batik.swing.svg.JSVGComponent
            • org.apache.batik.swing.JSVGCanvas
              • idare.imagenode.Utilities.GUI.JSVGGlassCanvas
              • idare.imagenode.internal.GUI.Legend.NodeSVGCanvas
        • javax.swing.JInternalFrame (implements javax.accessibility.Accessible, javax.swing.RootPaneContainer, javax.swing.WindowConstants)
          • idare.imagenode.internal.Layout.Manual.GUI.DataSetFrame
        • javax.swing.JLabel (implements javax.accessibility.Accessible, javax.swing.SwingConstants)
          • idare.imagenode.internal.Layout.Automatic.ImageNodeContainer
        • javax.swing.JPanel (implements javax.accessibility.Accessible)
          • idare.imagenode.Data.BasicDataTypes.ArrayData.ArrayDataDescription
            • idare.imagenode.internal.Data.MultiArray.ScatterData.HeaderDescription
          • idare.imagenode.Data.BasicDataTypes.ArrayData.ArrayDataDescription.ItemDescriptionPane
          • idare.imagenode.ColorManagement.ColorScalePane
            • idare.imagenode.ColorManagement.DiscreteColorScalePane
          • idare.imagenode.internal.Layout.Manual.GUI.ColorToolBarEntry
          • idare.imagenode.internal.GUI.NetworkSetup.ColumnTypeChooser
          • idare.imagenode.internal.GUI.DataSetController.DataSetControlPanel (implements org.cytoscape.application.swing.CytoPanelComponent)
          • idare.imagenode.internal.Layout.Manual.GUI.DataSetPropertyToolBarEntry
          • idare.imagenode.internal.Layout.Manual.GUI.IDPanel
          • idare.imagenode.internal.Layout.Manual.GUI.Tasks.LayoutPropertiesGUI
          • idare.imagenode.Data.BasicDataTypes.MultiArrayData.MultiArrayDescription (implements idare.imagenode.GUI.Legend.Utilities.SizeAdaptableComponent)
            • idare.imagenode.internal.Data.MultiArray.GraphData.LineDescription
            • idare.imagenode.internal.Data.MultiArray.IndividualGraph.LineDescription
            • idare.imagenode.internal.Data.MultiArray.ScatterData.MarkerDataDescription
          • idare.imagenode.Data.BasicDataTypes.MultiArrayData.MultiArrayEntryDescriptionPane
          • idare.imagenode.Data.BasicDataTypes.MultiArrayData.MultiArrayEntryPanel
          • idare.imagenode.internal.GUI.NetworkSetup.NetworkSetupTunableGUI
          • idare.imagenode.internal.Layout.Manual.GUI.NodeIDSelectorToolBarEntry
          • idare.subnetwork.internal.GUI.SubnetworkInteractionAndCompoundChooser
          • idare.subnetwork.internal.GUI.SubnetworkPropertiesSelectionGUI
          • idare.subnetwork.internal.GUI.SubnetworkPropertyColumnChooser
          • idare.imagenode.internal.GUI.DataSetAddition.TunableDataSetAdderGUI
        • javax.swing.JPopupMenu (implements javax.accessibility.Accessible, javax.swing.MenuElement)
          • idare.imagenode.internal.Layout.Manual.GUI.ColorPopup
        • javax.swing.JScrollPane (implements javax.accessibility.Accessible, javax.swing.ScrollPaneConstants)
          • idare.imagenode.internal.GUI.Legend.IDARELegend (implements org.cytoscape.application.swing.CytoPanelComponent, idare.imagenode.internal.DataManagement.Events.NodeChangedListener)
        • javax.swing.JTable (implements javax.accessibility.Accessible, javax.swing.event.CellEditorListener, javax.swing.event.ListSelectionListener, javax.swing.event.RowSorterListener, javax.swing.Scrollable, javax.swing.event.TableColumnModelListener, javax.swing.event.TableModelListener)
          • idare.imagenode.internal.GUI.DataSetController.DataSetSelectionTable
        • javax.swing.JToolBar (implements javax.accessibility.Accessible, javax.swing.SwingConstants)
          • idare.imagenode.internal.Layout.Manual.GUI.DataSetLayoutToolBar (implements java.awt.event.ItemListener)
      • java.awt.Window (implements javax.accessibility.Accessible)
        • java.awt.Frame (implements java.awt.MenuContainer)
          • javax.swing.JFrame (implements javax.accessibility.Accessible, javax.swing.RootPaneContainer, javax.swing.WindowConstants)
            • idare.imagenode.internal.Layout.Manual.LayoutGUI (implements java.awt.event.ActionListener, javax.swing.event.InternalFrameListener)
  • java.awt.event.ComponentAdapter (implements java.awt.event.ComponentListener)
    • idare.imagenode.Data.BasicDataTypes.ArrayData.ArrayDataDescription.ItemDescriptionResizeListener (implements idare.imagenode.GUI.Legend.Utilities.LegendSizeListener)
    • idare.imagenode.internal.Layout.Manual.GUI.ManualLayoutUpdater (implements javax.swing.event.InternalFrameListener)
    • idare.imagenode.internal.GUI.Legend.NodeResizer (implements idare.imagenode.GUI.Legend.Utilities.LegendSizeListener)
    • idare.imagenode.GUI.Legend.Utilities.TextPaneResizer (implements idare.imagenode.GUI.Legend.Utilities.LegendSizeListener)
  • idare.imagenode.Interfaces.Layout.ContainerLayout (implements java.io.Serializable)
    • idare.imagenode.Data.BasicDataTypes.ArrayData.AbstractArrayContainerLayout
      • idare.imagenode.internal.Data.Array.CircleData.CircleContainerLayout
      • idare.imagenode.internal.Data.Array.RectangleData.RectangleContainerLayout
    • idare.imagenode.Data.BasicDataTypes.MultiArrayData.MultiArrayContainerLayout
      • idare.imagenode.internal.Data.MultiArray.GraphData.GraphContainerLayout
      • idare.imagenode.internal.Data.MultiArray.IndividualGraph.IndividualGraphContainerLayout
      • idare.imagenode.internal.Data.MultiArray.ScatterData.ScatterContainerLayout
  • idare.imagenode.ColorManagement.ColorMapTypes.ContinousColorMap.ColorScaleLegendLayout (implements java.awt.LayoutManager, java.io.Serializable)
  • idare.imagenode.internal.DataSetReaders.CSVReader.CSVCell (implements org.apache.poi.ss.usermodel.Cell)
  • idare.imagenode.internal.DataSetReaders.CSVReader.CSVRow (implements org.apache.poi.ss.usermodel.Row)
  • idare.imagenode.internal.DataSetReaders.CSVReader.CSVSheet (implements org.apache.poi.ss.usermodel.Sheet)
  • idare.imagenode.internal.DataSetReaders.CSVReader.CSVWorkbook (implements org.apache.poi.ss.usermodel.Workbook)
  • idare.imagenode.internal.Services.JSBML.CVTerm
  • idare.ThirdParty.CytoscapeUtils
  • idare.imagenode.Interfaces.DataSets.DataSet (implements idare.imagenode.internal.IDAREService, java.io.Serializable)
    • idare.imagenode.Data.BasicDataTypes.ArrayData.ArrayDataSet
    • idare.imagenode.Data.BasicDataTypes.MultiArrayData.MultiArrayDataSet
  • idare.imagenode.internal.DataManagement.Events.DataSetChangedEvent
  • idare.imagenode.internal.DataManagement.DataSetFactory
  • idare.imagenode.internal.GUI.DataSetAddition.DataSetGenerationParameters
  • idare.imagenode.internal.DataManagement.DataSetIDProvider
  • idare.imagenode.internal.Layout.DataSetLayoutInfoBundle (implements idare.imagenode.internal.Layout.DataSetLink)
  • idare.imagenode.Interfaces.Layout.DataSetLayoutProperties (implements idare.imagenode.internal.IDAREService, java.io.Serializable)
    • idare.imagenode.Data.BasicDataTypes.ArrayData.AbstractArrayDataSetProperties
      • idare.imagenode.internal.Data.Array.CircleData.CircleDataSetProperties
        • idare.imagenode.internal.Data.Array.CircleGridData.CircleGridProperties
      • idare.imagenode.internal.Data.Array.RectangleData.RectangleDataSetProperties
      • idare.imagenode.internal.Data.Array.TimeSeriesData.TimeSeriesDataSetProperties
    • idare.imagenode.Data.BasicDataTypes.MultiArrayData.MultiArrayDataProperties
      • idare.imagenode.internal.Data.MultiArray.GraphData.GraphDataSetProperties
      • idare.imagenode.internal.Data.MultiArray.IndividualGraph.IndividualGraphDataSetProperties
      • idare.imagenode.internal.Data.MultiArray.ScatterData.ScatterDataSetProperties
        • idare.imagenode.internal.Data.MultiArray.ScatterData.LargeScatterProperties
        • idare.imagenode.internal.Data.MultiArray.ScatterData.SmallScatterProperties
  • idare.imagenode.internal.DataManagement.DataSetManager
  • idare.imagenode.internal.GUI.DataSetAddition.DataSetParametersGUIHandlerFactory (implements org.cytoscape.work.swing.GUITunableHandlerFactory<T>)
  • idare.imagenode.internal.DataManagement.DataSetProvider (implements idare.imagenode.Interfaces.Plugin.IDAREPlugin)
  • idare.imagenode.internal.DataSetReaders.DataSetReaderProvider (implements idare.imagenode.Interfaces.Plugin.IDAREPlugin)
  • idare.imagenode.internal.GUI.DataSetAddition.Tasks.DataSetReadingInfo
  • idare.imagenode.internal.DataManagement.Events.DataSetsChangedEvent
  • idare.imagenode.internal.ImageManagement.DefaultLayoutProvider (implements idare.imagenode.Interfaces.Plugin.IDAREPlugin)
  • idare.ThirdParty.DelayedVizProp
  • javax.swing.text.EditorKit (implements java.lang.Cloneable, java.io.Serializable)
    • javax.swing.text.DefaultEditorKit
      • javax.swing.text.StyledEditorKit
        • idare.ThirdParty.TextPaneEditorKit
  • idare.imagenode.Utilities.EOOMarker (implements java.io.Serializable)
  • idare.sbmlannotator.internal.gpr.FBCGPRParser
  • idare.sbmlannotator.internal.gpr.Gene
  • idare.sbmlannotator.internal.gpr.GPRAssociation
  • idare.sbmlannotator.internal.gpr.GPRListTokenizer
  • idare.sbmlannotator.internal.gpr.GPRManager
  • idare.sbmlannotator.internal.gpr.GPRTokenizer
  • idare.imagenode.internal.ImageManagement.GraphicsChangedEvent
  • idare.imagenode.internal.Services.JSBML.GroupModelPlugin
  • idare.imagenode.Utilities.GUIUtils
  • idare.internal.IDAREApp (implements org.cytoscape.session.events.SessionLoadedListener)
  • idare.imagenode.Interfaces.DataSetReaders.WorkBook.BasicImplementation.IDARECellIterator (implements java.util.Iterator<E>)
  • idare.imagenode.internal.ImageManagement.IDARECustomGraphics (implements org.cytoscape.view.presentation.customgraphics.CyCustomGraphics<T>)
  • idare.imagenode.internal.ImageManagement.IDARECustomImageLayer (implements org.cytoscape.view.presentation.customgraphics.ImageCustomGraphicLayer)
  • idare.imagenode.Interfaces.DataSetReaders.IDAREDatasetReader (implements idare.imagenode.internal.IDAREService)
    • idare.imagenode.internal.DataSetReaders.CSVReader.CSVReader
      • idare.imagenode.internal.DataSetReaders.CSVReader.TSVReader
    • idare.imagenode.internal.DataSetReaders.POIReader.POIReader
  • idare.imagenode.internal.VisualStyle.IDAREDependentMapper<S> (implements org.cytoscape.view.vizmap.mappings.DiscreteMapping<K,V>, org.cytoscape.view.vizmap.VisualMappingFunction<K,V>)
  • idare.imagenode.internal.IDAREImageNodeApp (implements org.cytoscape.session.events.SessionAboutToBeSavedListener)
  • idare.imagenode.IDAREImageNodeAppService
  • idare.imagenode.internal.VisualStyle.IDAREMappingFunction (implements org.cytoscape.view.vizmap.mappings.DiscreteMapping<K,V>, idare.imagenode.internal.ImageManagement.GraphicsChangedListener, org.cytoscape.view.vizmap.VisualMappingFunction<K,V>)
  • idare.Properties.IDAREProperties
  • idare.Properties.IDAREProperties.EdgeType
  • idare.Properties.IDAREProperties.NodeType
  • idare.imagenode.Interfaces.DataSetReaders.IDAREReaderSetupTask (implements org.cytoscape.work.Task)
  • idare.imagenode.Interfaces.DataSetReaders.WorkBook.BasicImplementation.IDARERowIterator (implements java.util.Iterator<E>)
  • idare.Properties.IDARESettingsManager
  • idare.imagenode.internal.VisualStyle.IDAREVisualStyle (implements idare.imagenode.internal.ImageManagement.GraphicsChangedListener, org.cytoscape.session.events.SessionLoadedListener)
  • idare.imagenode.internal.DataManagement.ImageNodeModel
  • idare.imagenode.Properties.IMAGENODEPROPERTIES
  • idare.imagenode.internal.ImageManagement.ImageStorage (implements org.cytoscape.view.presentation.customgraphics.CyCustomGraphicsFactory<T>, org.cytoscape.view.vizmap.mappings.DiscreteMapping<K,V>, idare.imagenode.internal.DataManagement.Events.NodeChangedListener, org.cytoscape.view.vizmap.VisualMappingFunction<K,V>)
  • idare.imagenode.Utilities.IOUtils
  • idare.imagenode.Properties.LabelGenerator
  • idare.imagenode.internal.Layout.Manual.Utilities.LayoutComparator (implements java.lang.Comparable<T>)
  • idare.imagenode.internal.Layout.io.LayoutIOManager
  • idare.imagenode.internal.Layout.Manual.LayoutPropertyBundle
  • idare.imagenode.Utilities.LayoutUtils
  • idare.imagenode.Utilities.LegendLabel (implements java.io.Serializable)
  • idare.imagenode.internal.GUI.Legend.LegendUpdater (implements org.cytoscape.model.events.RowsSetListener)
  • idare.imagenode.Properties.Localisation
  • idare.imagenode.internal.Layout.Manual.ManualLayout (implements idare.imagenode.internal.Layout.ImageNodeLayout)
  • idare.imagenode.internal.Layout.Manual.ManualNodeLayout (implements idare.imagenode.internal.IDAREService, idare.imagenode.internal.Layout.ImageNodeLayout)
  • idare.imagenode.internal.Layout.Manual.GUI.ManualNodeLayoutManager (implements java.awt.LayoutManager)
  • idare.imagenode.internal.Services.JSBML.Member
  • idare.imagenode.internal.Services.JSBML.Model
  • java.awt.event.MouseAdapter (implements java.awt.event.MouseListener, java.awt.event.MouseMotionListener, java.awt.event.MouseWheelListener)
    • javax.swing.event.MouseInputAdapter (implements javax.swing.event.MouseInputListener)
      • idare.imagenode.Utilities.GUI.MouseDraggingListener<T>
      • idare.imagenode.Utilities.GUI.MouseResizerListener<T>
  • idare.imagenode.Data.BasicDataTypes.MultiArrayData.MultiArrayContainer (implements idare.imagenode.Interfaces.DataSets.DataContainer)
    • idare.imagenode.internal.Data.MultiArray.GraphData.GraphContainer
    • idare.imagenode.internal.Data.MultiArray.IndividualGraph.IndividualGraphContainer
    • idare.imagenode.internal.Data.MultiArray.ScatterData.ScatterContainer
  • idare.imagenode.internal.ColorManagement.ColorScales.MultiColorScale (implements idare.imagenode.ColorManagement.ColorScale)
    • idare.imagenode.internal.ColorManagement.ColorScales.BlackYellowRed
    • idare.imagenode.internal.ColorManagement.ColorScales.BlueWhiteRedScale
    • idare.imagenode.internal.ColorManagement.ColorScales.BlueYellowRed
    • idare.imagenode.internal.ColorManagement.ColorScales.DiscreteColorScale
      • idare.imagenode.internal.ColorManagement.ColorScales.FlagScale
      • idare.imagenode.internal.ColorManagement.ColorScales.LineScale
      • idare.imagenode.internal.ColorManagement.ColorScales.PrismScale
    • idare.imagenode.internal.ColorManagement.ColorScales.GreenBlackRed
    • idare.imagenode.internal.ColorManagement.ColorScales.GreenYellow
    • idare.imagenode.internal.ColorManagement.ColorScales.HSVScale
    • idare.imagenode.internal.ColorManagement.ColorScales.JetScale
    • idare.imagenode.internal.ColorManagement.ColorScales.RedWhiteBlueScale
    • idare.imagenode.internal.ColorManagement.ColorScales.WhiteBlack
    • idare.imagenode.internal.ColorManagement.ColorScales.WhiteBlue
    • idare.imagenode.internal.ColorManagement.ColorScales.WhiteRed
    • idare.imagenode.internal.ColorManagement.ColorScales.YellowGreen
    • idare.imagenode.internal.ColorManagement.ColorScales.YellowRed
  • idare.subnetwork.internal.NetworkNode (implements java.io.Serializable)
  • idare.imagenode.internal.GUI.NetworkSetup.Tasks.NetworkSetupGUIHandlerFactory (implements org.cytoscape.work.swing.GUITunableHandlerFactory<T>)
  • idare.imagenode.internal.Layout.Manual.GUI.Tasks.NetworkSetupGUIHandlerFactory (implements org.cytoscape.work.swing.GUITunableHandlerFactory<T>)
  • idare.imagenode.internal.GUI.NetworkSetup.Tasks.NetworkSetupProperties
  • idare.subnetwork.internal.NodeAndNetworkStruct
  • idare.imagenode.Interfaces.DataSets.NodeData (implements java.io.Serializable)
    • idare.imagenode.Data.BasicDataTypes.ArrayData.ArrayNodeData
    • idare.imagenode.Data.BasicDataTypes.MultiArrayData.MultiArrayNodeData
  • idare.NodeDuplicator.Internal.Tasks.NodeDuplicationTask
  • idare.NodeDuplicator.Internal.NodeDuplicatorFactory (implements org.cytoscape.task.NodeViewTaskFactory)
  • idare.imagenode.internal.DataManagement.NodeManager (implements idare.imagenode.internal.DataManagement.Events.DataSetChangeListener, idare.imagenode.IDARENodeManager)
  • idare.NodeDuplicator.Internal.NodeMergerFactory (implements org.cytoscape.task.NodeViewTaskFactory)
  • idare.NodeDuplicator.Internal.NodeRegistry (implements org.cytoscape.model.events.RowsSetListener, org.cytoscape.work.TaskFactory)
  • idare.imagenode.internal.DataManagement.Events.NodeUpdateEvent
  • idare.imagenode.Interfaces.DataSets.NodeValue (implements java.lang.Comparable<T>, java.io.Serializable)
    • idare.imagenode.Data.BasicDataTypes.MultiArrayData.MultiArrayDataValue
  • idare.subnetwork.internal.NodeViewLink
  • idare.imagenode.internal.DataSetReaders.POIReader.POICell (implements idare.imagenode.Interfaces.DataSetReaders.WorkBook.IDARECell)
  • idare.imagenode.internal.DataSetReaders.POIReader.POIRow (implements idare.imagenode.Interfaces.DataSetReaders.WorkBook.IDARERow)
  • idare.imagenode.internal.DataSetReaders.POIReader.POISheet (implements idare.imagenode.Interfaces.DataSetReaders.WorkBook.IDARESheet)
  • idare.imagenode.internal.Services.POI.POIToIDARETypes
  • idare.imagenode.internal.DataSetReaders.POIReader.POIWorkBook (implements idare.imagenode.Interfaces.DataSetReaders.WorkBook.IDAREWorkbook)
  • idare.imagenode.internal.Debug.PrintFDebugger
  • idare.sbmlannotator.internal.gpr.Protein
  • java.awt.geom.RectangularShape (implements java.lang.Cloneable, java.awt.Shape)
    • java.awt.geom.Rectangle2D
      • java.awt.Rectangle (implements java.io.Serializable, java.awt.Shape)
        • idare.imagenode.internal.Layout.Manual.Utilities.LayoutArea (implements java.lang.Comparable<T>)
  • idare.imagenode.internal.Services.JSBML.SBase
    • idare.imagenode.internal.Services.JSBML.GeneProduct
    • idare.imagenode.internal.Services.JSBML.Group
    • idare.imagenode.internal.Services.JSBML.Reaction
    • idare.imagenode.internal.Services.JSBML.Species
  • idare.imagenode.internal.Services.JSBML.SBMLDocument
  • idare.imagenode.internal.Services.JSBML.SBMLManagerHolder
  • idare.imagenode.internal.Data.MultiArray.ScatterData.ScatterContainerLayout.LabelAndPosition (implements java.io.Serializable)
  • idare.imagenode.internal.Layout.SimpleLink (implements idare.imagenode.internal.Layout.DataSetLink)
  • idare.imagenode.Utilities.StringUtils
  • idare.imagenode.internal.VisualStyle.StyleManager (implements idare.imagenode.internal.ImageManagement.GraphicsChangedListener, org.cytoscape.session.events.SessionAboutToBeSavedListener, org.cytoscape.session.events.SessionLoadedListener)
  • idare.subnetwork.internal.Tasks.propertySelection.SubnetworkColumnProperties
  • idare.subnetwork.internal.Tasks.SubsystemGeneration.SubnetworkCreationGUIHandlerFactory (implements org.cytoscape.work.swing.GUITunableHandlerFactory<T>)
  • idare.subnetwork.internal.Tasks.SubsystemGeneration.SubNetworkProperties
  • idare.subnetwork.internal.Tasks.propertySelection.SubnetworkPropertyColumnGUIHandlerFactory (implements org.cytoscape.work.swing.GUITunableHandlerFactory<T>)
  • idare.subnetwork.internal.SubnetworkSessionManager
  • idare.subnetwork.internal.SubNetworkUtils
  • java.lang.Throwable (implements java.io.Serializable)
    • java.lang.Exception
      • idare.imagenode.exceptions.layout.ContainerUnplaceableExcpetion
      • idare.imagenode.internal.exceptions.debug.DebugException
      • idare.imagenode.exceptions.layout.DimensionMismatchException
      • idare.imagenode.exceptions.io.DuplicateIDException
      • idare.subnetwork.internal.Tasks.InvalidSelectionException
      • idare.subnetwork.internal.NoNetworksToCreateException
      • idare.imagenode.exceptions.layout.TooManyItemsException
      • idare.imagenode.exceptions.layout.WrongDatasetTypeException
      • idare.imagenode.exceptions.io.WrongFormat
  • org.apache.batik.transcoder.TranscoderSupport
    • org.apache.batik.transcoder.AbstractTranscoder (implements org.apache.batik.transcoder.Transcoder)
      • org.apache.batik.transcoder.XMLAbstractTranscoder
        • org.apache.batik.transcoder.SVGAbstractTranscoder
          • org.apache.batik.transcoder.image.ImageTranscoder
            • idare.ThirdParty.BufferedImageTranscoder
  • idare.imagenode.internal.Services.JSBML.XMLNode

Interface Hierarchy

• idare.imagenode.Interfaces.DataSets.DataContainer
• idare.imagenode.internal.DataManagement.Events.DataSetAboutToBeChangedListener
  • idare.imagenode.internal.Layout.ImageNodeLayout
• idare.imagenode.internal.DataManagement.Events.DataSetChangeListener
• idare.imagenode.internal.Layout.DataSetLink
• idare.imagenode.internal.ImageManagement.GraphicsChangedListener
• idare.imagenode.Interfaces.DataSetReaders.WorkBook.IDARECell
• idare.imagenode.IDARENodeManager
• idare.imagenode.Interfaces.Plugin.IDAREPlugin
• idare.imagenode.internal.IDAREService
• idare.imagenode.Interfaces.DataSetReaders.WorkBook.IDAREWorkbook
• java.lang.Iterable<T>
  • idare.imagenode.Interfaces.DataSetReaders.WorkBook.IDARERow
  • idare.imagenode.Interfaces.DataSetReaders.WorkBook.IDARESheet
• idare.imagenode.GUI.Legend.Utilities.LegendSizeListener
• idare.imagenode.internal.DataManagement.Events.NodeChangedListener
• java.io.Serializable
  • idare.imagenode.ColorManagement.ColorScale
• idare.imagenode.GUI.Legend.Utilities.SizeAdaptableComponent

Enum Hierarchy

• java.lang.Object
  • java.lang.Enum<E> (implements java.lang.Comparable<T>, java.io.Serializable)
    • idare.imagenode.Properties.Localisation.Position
    • idare.imagenode.Properties.NodeValueType
    • idare.imagenode.Properties.IMAGENODEPROPERTIES.LayoutStyle
    • idare.imagenode.internal.Layout.Automatic.ImageBag.BAGPOSITON
    • idare.imagenode.internal.Services.JSBML.CVTerm.Qualifier
    • idare.imagenode.Interfaces.DataSetReaders.WorkBook.IDARECell.CellType