Package adams.flow.sink.sequenceplotter

Class SequencePlotterPanel

java.lang.Object

java.awt.Component

java.awt.Container

javax.swing.JComponent

javax.swing.JPanel

adams.gui.core.BasePanel

adams.gui.visualization.core.PaintablePanel

adams.gui.visualization.container.DataContainerPanel<T,M>

adams.gui.visualization.container.DataContainerPanelWithSidePanel<T,M>

adams.gui.visualization.container.DataContainerPanelWithContainerList<XYSequence,XYSequenceContainerManager,XYSequenceContainer>

adams.gui.visualization.sequence.XYSequencePanel

adams.flow.sink.sequenceplotter.SequencePlotterPanel

All Implemented Interfaces:

CleanUpHandler, StatusMessageHandler, DatabaseConnectionHandler, DatabaseConnectionProvider, DatabaseConnectionUser, DatabaseConnectionChangeListener, PopupMenuCustomizer<MouseEvent>, DataChangeListener, PaintListener, ScriptingEngineHandler, SendToActionSupporter, ContainerListManager<XYSequenceContainerManager>, ContainerListPopupMenuSupplier<XYSequenceContainerManager,XYSequenceContainer>, PaintletManager, TipTextCustomizer, PopupMenuCustomizer, ImageObserver, MenuContainer, Serializable, EventListener, Accessible

Direct Known Subclasses:

AbstractClassifierBasedGeneticAlgorithmWizard.PerformancePlot

public class SequencePlotterPanel
extends XYSequencePanel

The panel that plots all the sequences.

Version:

$Revision$

Author:

fracpete (fracpete at waikato dot ac dot nz)

See Also:

Serialized Form

Nested Class Summary

Nested classes/interfaces inherited from class javax.swing.JPanel

JPanel.AccessibleJPanel

Nested classes/interfaces inherited from class javax.swing.JComponent

JComponent.AccessibleJComponent

Nested classes/interfaces inherited from class java.awt.Container

Container.AccessibleAWTContainer

Nested classes/interfaces inherited from class java.awt.Component

Component.AccessibleAWTComponent, Component.BaselineResizeBehavior, Component.BltBufferStrategy, Component.FlipBufferStrategy

Field Summary

Fields

Modifier and Type	Field	Description
protected AbstractErrorPaintlet	m_ErrorPaintlet	the error paintlet.
protected XYSequenceContainerManager	m_MarkerContainerManager	the manager for the marker sequences.
protected MarkerPaintlet	m_MarkerPaintlet	the paintlet to use for marker paintlets.
protected MouseClickAction	m_MouseClickAction	the mouse click action.
protected XYSequenceContainerManager	m_OverlayContainerManager	the manager for the overlays.
protected XYSequencePaintlet	m_OverlayPaintlet	paintlet for drawing the overlays.

Fields inherited from class adams.gui.visualization.sequence.XYSequencePanel

m_AdjustToVisibleData, m_AllowResize, m_CoordinatesPaintlet, m_ExportDialog, m_FileChooser, m_Undo, m_ViewDialogs, m_XYSequencePaintlet

Fields inherited from class adams.gui.visualization.container.DataContainerPanelWithContainerList

m_ContainerList, m_ContainerListCustomizers, m_PlotCustomizers

Fields inherited from class adams.gui.visualization.container.DataContainerPanelWithSidePanel

m_FirstRevalidate, m_SidePanel, m_SplitPane

Fields inherited from class adams.gui.visualization.container.DataContainerPanel

m_DatabaseConnection, m_DataChangeListeners, m_Manager, m_PanelProperties, m_PlotPanel, m_PlotWrapperPanel, m_StatusMessageHandler, m_Title

Fields inherited from class adams.gui.visualization.core.PaintablePanel

m_Paintlets

Fields inherited from class javax.swing.JComponent

listenerList, TOOL_TIP_TEXT_KEY, ui, UNDEFINED_CONDITION, WHEN_ANCESTOR_OF_FOCUSED_COMPONENT, WHEN_FOCUSED, WHEN_IN_FOCUSED_WINDOW

Fields inherited from class java.awt.Component

accessibleContext, BOTTOM_ALIGNMENT, CENTER_ALIGNMENT, LEFT_ALIGNMENT, RIGHT_ALIGNMENT, TOP_ALIGNMENT

Fields inherited from interface java.awt.image.ImageObserver

ABORT, ALLBITS, ERROR, FRAMEBITS, HEIGHT, PROPERTIES, SOMEBITS, WIDTH

Constructor Summary

Constructors

Constructor	Description
SequencePlotterPanel(String title)	Initializes the panel with the specified title.

Method Summary

Modifier and Type	Method	Description
void	dataChanged(DataChangeEvent e)	Gets called if the data of the container panel has changed.
ColorProvider	getColorProvider()	Returns the color provider to use.
AbstractErrorPaintlet	getErrorPaintlet()	Returns the error paintlet to use.
XYSequenceContainerManager	getMarkerContainerManager()	Returns the marker container manager in use.
MarkerPaintlet	getMarkerPaintlet()	Returns the marker paintlet to use.
MouseClickAction	getMouseClickAction()	Returns the current mouse click action in use.
ColorProvider	getOverlayColorProvider()	Returns the color provider to use for the overlays.
XYSequenceContainerManager	getOverlayContainerManager()	Returns the overlay container manager in use.
XYSequencePaintlet	getOverlayPaintlet()	Returns the overlay paintlet to use.
protected void	initGUI()	Initializes the widgets.
protected void	initialize()	Initializes the members.
protected SequencePlotContainerManager	newContainerManager()	Returns the container manager to use.
protected XYSequenceContainerManager	newMarkerContainerManager()	Returns the manager for the marker sequences.
protected XYSequenceContainerManager	newOverlayContainerManager()	Returns the manager for the overlay data.
void	setAntiAliasingEnabled(boolean value)	Sets whether to use anti-aliasing.
void	setColorProvider(ColorProvider value)	Sets the color provider to use.
void	setErrorPaintlet(AbstractErrorPaintlet value)	Sets the error paintlet to use.
void	setMarkerPaintlet(MarkerPaintlet value)	Sets the marker paintlet to use.
void	setMouseClickAction(MouseClickAction value)	Sets the mouse click action to use.
void	setOverlayColorProvider(ColorProvider value)	Sets the color provider to use for the overlays.
void	setOverlayPaintlet(XYSequencePaintlet value)	Sets the overlay paintlet to use.
protected int[]	toMarkerIndices(int[] seqIndices)	Translates the indices of the sequence container manager into the ones from the marker container manager.
protected int[]	toOverlayIndices(int[] seqIndices)	Translates the indices of the sequence container manager into the ones from the overlay container manager.

Methods inherited from class adams.gui.visualization.sequence.XYSequencePanel

canHandleFixedLabels, canPaint, cleanUp, createContainerList, getAdjustToVisibleData, getAllowResize, getContainerListPopupMenu, getContainerPaintlet, getDataPaintlet, getDefaultDatabaseConnection, getScriptingEngine, getSequenceManager, getUndo, isAntiAliasingEnabled, isUndoSupported, prepareUpdate, processTipText, resizePlot, saveSequence, saveVisible, saveVisibleDataPoints, saveVisibleSequences, setAdjustToVisibleData, setAllowResize, setDataPaintlet, setUndo, showResizeDialog, storeColorInReport, storeValueInReport, supportsStoreColorInReport, supportsStoreValueInReport, viewSequence

Methods inherited from class adams.gui.visualization.container.DataContainerPanelWithContainerList

customizePopupMenu, getActualSelectedContainerIndices, getContainerList, getSelectedContainerIndices, getTableModelContainers, getTableModelIndices, processAction, showNotes

Methods inherited from class adams.gui.visualization.container.DataContainerPanelWithSidePanel

getDividerLocation, getSidePanel, isSidePanelVisible, revalidate, setDividerLocation, setDividerLocation, setSidePanelVisible

Methods inherited from class adams.gui.visualization.container.DataContainerPanel

databaseConnectionStateChanged, finishInit, getBackgroundColor, getContainerManager, getDatabaseConnection, getForegroundColor, getPlot, getProperties, getSendToClasses, getSendToItem, getStatusMessageHandler, getTitle, hasSendToItem, reset, setBackgroundColor, setContainerManager, setDatabaseConnection, setForegroundColor, setStatusMessageHandler, setTitle, showStatus

Methods inherited from class adams.gui.visualization.core.PaintablePanel

addPaintlet, check, paint, painted, paintlets, performUpdate, postUpdate, printAll, removePaintlet, update

Methods inherited from class adams.gui.core.BasePanel

afterHide, afterShow, beforeHide, beforeShow, closeParent, getParentChild, getParentDialog, getParentFrame, getParentInternalFrame, getParentTitle, main, printErrorMessage, printException, setEnabledCascade, setEnabledCascade, setParentTitle, setVisible

Methods inherited from class javax.swing.JPanel

getAccessibleContext, getUI, getUIClassID, paramString, setUI, updateUI

Methods inherited from class javax.swing.JComponent

addAncestorListener, addNotify, addVetoableChangeListener, computeVisibleRect, contains, createToolTip, disable, enable, firePropertyChange, firePropertyChange, firePropertyChange, fireVetoableChange, getActionForKeyStroke, getActionMap, getAlignmentX, getAlignmentY, getAncestorListeners, getAutoscrolls, getBaseline, getBaselineResizeBehavior, getBorder, getBounds, getClientProperty, getComponentGraphics, getComponentPopupMenu, getConditionForKeyStroke, getDebugGraphicsOptions, getDefaultLocale, getFontMetrics, getGraphics, getHeight, getInheritsPopupMenu, getInputMap, getInputMap, getInputVerifier, getInsets, getInsets, getListeners, getLocation, getMaximumSize, getMinimumSize, getNextFocusableComponent, getPopupLocation, getPreferredSize, getRegisteredKeyStrokes, getRootPane, getSize, getToolTipLocation, getToolTipText, getToolTipText, getTopLevelAncestor, getTransferHandler, getVerifyInputWhenFocusTarget, getVetoableChangeListeners, getVisibleRect, getWidth, getX, getY, grabFocus, hide, isDoubleBuffered, isLightweightComponent, isManagingFocus, isOpaque, isOptimizedDrawingEnabled, isPaintingForPrint, isPaintingOrigin, isPaintingTile, isRequestFocusEnabled, isValidateRoot, paint, paintBorder, paintChildren, paintComponent, paintImmediately, paintImmediately, print, printBorder, printChildren, printComponent, processComponentKeyEvent, processKeyBinding, processKeyEvent, processMouseEvent, processMouseMotionEvent, putClientProperty, registerKeyboardAction, registerKeyboardAction, removeAncestorListener, removeNotify, removeVetoableChangeListener, repaint, repaint, requestDefaultFocus, requestFocus, requestFocus, requestFocusInWindow, requestFocusInWindow, resetKeyboardActions, reshape, scrollRectToVisible, setActionMap, setAlignmentX, setAlignmentY, setAutoscrolls, setBackground, setBorder, setComponentPopupMenu, setDebugGraphicsOptions, setDefaultLocale, setDoubleBuffered, setEnabled, setFocusTraversalKeys, setFont, setForeground, setInheritsPopupMenu, setInputMap, setInputVerifier, setMaximumSize, setMinimumSize, setNextFocusableComponent, setOpaque, setPreferredSize, setRequestFocusEnabled, setToolTipText, setTransferHandler, setUI, setVerifyInputWhenFocusTarget, unregisterKeyboardAction, update

Methods inherited from class java.awt.Container

add, add, add, add, add, addContainerListener, addImpl, addPropertyChangeListener, addPropertyChangeListener, applyComponentOrientation, areFocusTraversalKeysSet, countComponents, deliverEvent, doLayout, findComponentAt, findComponentAt, getComponent, getComponentAt, getComponentAt, getComponentCount, getComponents, getComponentZOrder, getContainerListeners, getFocusTraversalKeys, getFocusTraversalPolicy, getLayout, getMousePosition, insets, invalidate, isAncestorOf, isFocusCycleRoot, isFocusCycleRoot, isFocusTraversalPolicyProvider, isFocusTraversalPolicySet, layout, list, list, locate, minimumSize, paintComponents, preferredSize, printComponents, processContainerEvent, processEvent, remove, remove, removeAll, removeContainerListener, setComponentZOrder, setFocusCycleRoot, setFocusTraversalPolicy, setFocusTraversalPolicyProvider, setLayout, transferFocusDownCycle, validate, validateTree

Methods inherited from class java.awt.Component

action, add, addComponentListener, addFocusListener, addHierarchyBoundsListener, addHierarchyListener, addInputMethodListener, addKeyListener, addMouseListener, addMouseMotionListener, addMouseWheelListener, bounds, checkImage, checkImage, coalesceEvents, contains, createImage, createImage, createVolatileImage, createVolatileImage, disableEvents, dispatchEvent, enable, enableEvents, enableInputMethods, firePropertyChange, firePropertyChange, firePropertyChange, firePropertyChange, firePropertyChange, firePropertyChange, getBackground, getBounds, getColorModel, getComponentListeners, getComponentOrientation, getCursor, getDropTarget, getFocusCycleRootAncestor, getFocusListeners, getFocusTraversalKeysEnabled, getFont, getForeground, getGraphicsConfiguration, getHierarchyBoundsListeners, getHierarchyListeners, getIgnoreRepaint, getInputContext, getInputMethodListeners, getInputMethodRequests, getKeyListeners, getLocale, getLocation, getLocationOnScreen, getMouseListeners, getMouseMotionListeners, getMousePosition, getMouseWheelListeners, getName, getParent, getPropertyChangeListeners, getPropertyChangeListeners, getSize, getToolkit, getTreeLock, gotFocus, handleEvent, hasFocus, imageUpdate, inside, isBackgroundSet, isCursorSet, isDisplayable, isEnabled, isFocusable, isFocusOwner, isFocusTraversable, isFontSet, isForegroundSet, isLightweight, isMaximumSizeSet, isMinimumSizeSet, isPreferredSizeSet, isShowing, isValid, isVisible, keyDown, keyUp, list, list, list, location, lostFocus, mouseDown, mouseDrag, mouseEnter, mouseExit, mouseMove, mouseUp, move, nextFocus, paintAll, postEvent, prepareImage, prepareImage, processComponentEvent, processFocusEvent, processHierarchyBoundsEvent, processHierarchyEvent, processInputMethodEvent, processMouseWheelEvent, remove, removeComponentListener, removeFocusListener, removeHierarchyBoundsListener, removeHierarchyListener, removeInputMethodListener, removeKeyListener, removeMouseListener, removeMouseMotionListener, removeMouseWheelListener, removePropertyChangeListener, removePropertyChangeListener, repaint, repaint, repaint, requestFocus, requestFocus, requestFocusInWindow, resize, resize, setBounds, setBounds, setComponentOrientation, setCursor, setDropTarget, setFocusable, setFocusTraversalKeysEnabled, setIgnoreRepaint, setLocale, setLocation, setLocation, setMixingCutoutShape, setName, setSize, setSize, show, show, size, toString, transferFocus, transferFocusBackward, transferFocusUpCycle

Methods inherited from class java.lang.Object

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

Methods inherited from interface adams.gui.event.PaintListener

painted

Field Detail

m_MarkerPaintlet

protected MarkerPaintlet m_MarkerPaintlet

the paintlet to use for marker paintlets.

m_MarkerContainerManager

protected XYSequenceContainerManager m_MarkerContainerManager

the manager for the marker sequences.

m_OverlayPaintlet

protected XYSequencePaintlet m_OverlayPaintlet

paintlet for drawing the overlays.

m_OverlayContainerManager

protected XYSequenceContainerManager m_OverlayContainerManager

the manager for the overlays.

m_ErrorPaintlet

protected AbstractErrorPaintlet m_ErrorPaintlet

the error paintlet.

m_MouseClickAction

protected MouseClickAction m_MouseClickAction

the mouse click action.

Constructor Detail

SequencePlotterPanel

public SequencePlotterPanel(String title)

Initializes the panel with the specified title.

Parameters:

title - the title to use

Method Detail

initialize

protected void initialize()

Initializes the members.

Overrides:

initialize in class XYSequencePanel

initGUI

protected void initGUI()

Initializes the widgets.

Overrides:

initGUI in class XYSequencePanel

newContainerManager

protected SequencePlotContainerManager newContainerManager()

Returns the container manager to use.

Overrides:

newContainerManager in class XYSequencePanel

Returns:

the container manager

newMarkerContainerManager

protected XYSequenceContainerManager newMarkerContainerManager()

Returns the manager for the marker sequences.

Returns:

the new container manager

getMarkerContainerManager

public XYSequenceContainerManager getMarkerContainerManager()

Returns the marker container manager in use.

Returns:

the container manager

newOverlayContainerManager

protected XYSequenceContainerManager newOverlayContainerManager()

Returns the manager for the overlay data.

Returns:

the new container manager

getOverlayContainerManager

public XYSequenceContainerManager getOverlayContainerManager()

Returns the overlay container manager in use.

Returns:

the container manager

setMarkerPaintlet

public void setMarkerPaintlet(MarkerPaintlet value)

Sets the marker paintlet to use.

Parameters:

value - the marker paintlet

getMarkerPaintlet

public MarkerPaintlet getMarkerPaintlet()

Returns the marker paintlet to use.

Returns:

the marker paintlet

setOverlayPaintlet

public void setOverlayPaintlet(XYSequencePaintlet value)

Sets the overlay paintlet to use.

Parameters:

value - the overlay paintlet

getOverlayPaintlet

public XYSequencePaintlet getOverlayPaintlet()

Returns the overlay paintlet to use.

Returns:

the overlay paintlet

setErrorPaintlet

public void setErrorPaintlet(AbstractErrorPaintlet value)

Sets the error paintlet to use.

Parameters:

value - the error paintlet

getErrorPaintlet

public AbstractErrorPaintlet getErrorPaintlet()

Returns the error paintlet to use.

Returns:

the error paintlet

setMouseClickAction

public void setMouseClickAction(MouseClickAction value)

Sets the mouse click action to use.

Parameters:

value - the action

getMouseClickAction

public MouseClickAction getMouseClickAction()

Returns the current mouse click action in use.

Returns:

the action

setColorProvider

public void setColorProvider(ColorProvider value)

Sets the color provider to use.

Parameters:

value - the color provider

getColorProvider

public ColorProvider getColorProvider()

Returns the color provider to use.

Returns:

the color provider in use

setOverlayColorProvider

public void setOverlayColorProvider(ColorProvider value)

Sets the color provider to use for the overlays.

Parameters:

value - the color provider

getOverlayColorProvider

public ColorProvider getOverlayColorProvider()

Returns the color provider to use for the overlays.

Returns:

the color provider in use

setAntiAliasingEnabled

public void setAntiAliasingEnabled(boolean value)

Sets whether to use anti-aliasing.

Overrides:

setAntiAliasingEnabled in class XYSequencePanel

Parameters:

value - if true then anti-aliasing is used

toMarkerIndices

protected int[] toMarkerIndices(int[] seqIndices)

Translates the indices of the sequence container manager into the ones from the marker container manager.

Parameters:

seqIndices - the indices of the sequence container manager

Returns:

the indices of the marker container manager

toOverlayIndices

protected int[] toOverlayIndices(int[] seqIndices)

Translates the indices of the sequence container manager into the ones from the overlay container manager.

Parameters:

seqIndices - the indices of the sequence container manager

Returns:

the indices of the overlay container manager

dataChanged

public void dataChanged(DataChangeEvent e)

Gets called if the data of the container panel has changed.

Specified by:

dataChanged in interface DataChangeListener

Overrides:

dataChanged in class DataContainerPanel<XYSequence,XYSequenceContainerManager>

Parameters:

e - the event that the container panel sent