org.simtk.moleculargraphics
Class TornadoSequenceCanvas

java.lang.Object
  java.awt.Component
      java.awt.Container
          javax.swing.JComponent
              javax.swing.JPanel
                  org.simtk.moleculargraphics.BufferedCanvas
                      org.simtk.moleculargraphics.SequenceCanvas
                          org.simtk.moleculargraphics.TornadoSequenceCanvas

All Implemented Interfaces:

java.awt.event.AdjustmentListener, java.awt.event.ComponentListener, java.awt.event.MouseListener, java.awt.event.MouseMotionListener, java.awt.image.ImageObserver, java.awt.MenuContainer, java.io.Serializable, java.util.EventListener, java.util.Observer, javax.accessibility.Accessible, ResidueCenterListener, ResidueHighlightListener

public class TornadoSequenceCanvas
extends SequenceCanvas
implements ResidueHighlightListener, java.awt.event.MouseMotionListener, java.awt.event.AdjustmentListener, java.awt.event.MouseListener, ResidueCenterListener

See Also:

Serialized Form

Nested Class Summary

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

javax.swing.JPanel.AccessibleJPanel

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

javax.swing.JComponent.AccessibleJComponent

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

java.awt.Container.AccessibleAWTContainer

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

java.awt.Component.AccessibleAWTComponent, java.awt.Component.BltBufferStrategy, java.awt.Component.FlipBufferStrategy

Field Summary

protected java.util.Map<Residue,java.awt.Color>	highlightResidues
protected java.util.Set<Residue>	temporarilySelectedResidues

Fields inherited from class org.simtk.moleculargraphics.SequenceCanvas

font, myGraphics, numberFont, positionResidues, residuePositions

Fields inherited from class javax.swing.JComponent

accessibleContext, 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

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

TornadoSequenceCanvas(java.lang.String initialSequence, SequencePane p, ResidueHighlightBroadcaster b, ResidueCenterBroadcaster c)

Method Summary

void	add(Residue r)
void	adjustmentValueChanged(java.awt.event.AdjustmentEvent e)
void	centerOnResidue(Residue r)
void	clearResidues()
Residue	getFinalVisibleResidue()
Residue	getFirstVisibleResidue()
int	getSequenceWidth() What is the total width in pixels of the entire sequence?
int	getViewportWidth() How wide is the viewport in which the sequence is shown?
void	highlightPosition(java.awt.Graphics graphics, int position, java.awt.Color color)
void	highlightResidue(Residue r, java.awt.Color c)
void	lubricateUserInteraction()
void	mouseClicked(java.awt.event.MouseEvent event)
void	mouseDragged(java.awt.event.MouseEvent e)
void	mouseEntered(java.awt.event.MouseEvent e)
void	mouseExited(java.awt.event.MouseEvent e)
void	mouseMoved(java.awt.event.MouseEvent e)
void	mousePressed(java.awt.event.MouseEvent e)
void	mouseReleased(java.awt.event.MouseEvent e)
void	paint(java.awt.Graphics onScreenGraphics)
void	unhighlightResidue(Residue r)
void	unhighlightResidues()

Methods inherited from class org.simtk.moleculargraphics.SequenceCanvas

getLeftEdgePixel, getMaximumSize, getMinimumSize, getMolecule, getPreferredSize, getResidueWidth, getRightEdgePixel, getTotalSequenceWidth, setLeftEdgePixel, setMolecule, setParentContainer, setSequenceColor, update, update

Methods inherited from class org.simtk.moleculargraphics.BufferedCanvas

componentHidden, componentMoved, componentResized, componentShown

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, getBorder, getBounds, getClientProperty, getComponentGraphics, getComponentPopupMenu, getConditionForKeyStroke, getDebugGraphicsOptions, getDefaultLocale, getFontMetrics, getGraphics, getHeight, getInheritsPopupMenu, getInputMap, getInputMap, getInputVerifier, getInsets, getInsets, getListeners, getLocation, getNextFocusableComponent, getPopupLocation, getRegisteredKeyStrokes, getRootPane, getSize, getToolTipLocation, getToolTipText, getToolTipText, getTopLevelAncestor, getTransferHandler, getVerifyInputWhenFocusTarget, getVetoableChangeListeners, getVisibleRect, getWidth, getX, getY, grabFocus, isDoubleBuffered, isLightweightComponent, isManagingFocus, isOpaque, isOptimizedDrawingEnabled, isPaintingTile, isRequestFocusEnabled, isValidateRoot, paintBorder, paintChildren, paintComponent, paintImmediately, paintImmediately, print, printAll, printBorder, printChildren, printComponent, processComponentKeyEvent, processKeyBinding, processKeyEvent, processMouseEvent, processMouseMotionEvent, putClientProperty, registerKeyboardAction, registerKeyboardAction, removeAncestorListener, removeNotify, removeVetoableChangeListener, repaint, repaint, requestDefaultFocus, requestFocus, requestFocus, requestFocusInWindow, requestFocusInWindow, resetKeyboardActions, reshape, revalidate, 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, setVisible, unregisterKeyboardAction

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, transferFocusBackward, 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, getPeer, getPropertyChangeListeners, getPropertyChangeListeners, getSize, getToolkit, getTreeLock, gotFocus, handleEvent, hasFocus, hide, 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, resize, resize, setBounds, setBounds, setComponentOrientation, setCursor, setDropTarget, setFocusable, setFocusTraversalKeysEnabled, setIgnoreRepaint, setLocale, setLocation, setLocation, setName, setSize, setSize, show, show, size, toString, transferFocus, transferFocusUpCycle

Methods inherited from class java.lang.Object

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

Field Detail

highlightResidues

protected java.util.Map<Residue,java.awt.Color> highlightResidues

temporarilySelectedResidues

protected java.util.Set<Residue> temporarilySelectedResidues

Constructor Detail

TornadoSequenceCanvas

public TornadoSequenceCanvas(java.lang.String initialSequence,
                             SequencePane p,
                             ResidueHighlightBroadcaster b,
                             ResidueCenterBroadcaster c)

Method Detail

highlightPosition

public void highlightPosition(java.awt.Graphics graphics,
                              int position,
                              java.awt.Color color)

paint

public void paint(java.awt.Graphics onScreenGraphics)

Overrides:

paint in class SequenceCanvas

clearResidues

public void clearResidues()

add

public void add(Residue r)

highlightResidue

public void highlightResidue(Residue r,
                             java.awt.Color c)

Specified by:

highlightResidue in interface ResidueHighlightListener

unhighlightResidue

public void unhighlightResidue(Residue r)

Specified by:

unhighlightResidue in interface ResidueHighlightListener

unhighlightResidues

public void unhighlightResidues()

Specified by:

unhighlightResidues in interface ResidueHighlightListener

centerOnResidue

public void centerOnResidue(Residue r)

Specified by:

centerOnResidue in interface ResidueCenterListener

mouseClicked

public void mouseClicked(java.awt.event.MouseEvent event)

Specified by:

mouseClicked in interface java.awt.event.MouseListener

mousePressed

public void mousePressed(java.awt.event.MouseEvent e)

Specified by:

mousePressed in interface java.awt.event.MouseListener

mouseReleased

public void mouseReleased(java.awt.event.MouseEvent e)

Specified by:

mouseReleased in interface java.awt.event.MouseListener

mouseEntered

public void mouseEntered(java.awt.event.MouseEvent e)

Specified by:

mouseEntered in interface java.awt.event.MouseListener

mouseExited

public void mouseExited(java.awt.event.MouseEvent e)

Specified by:

mouseExited in interface java.awt.event.MouseListener

mouseMoved

public void mouseMoved(java.awt.event.MouseEvent e)

Specified by:

mouseMoved in interface java.awt.event.MouseMotionListener

mouseDragged

public void mouseDragged(java.awt.event.MouseEvent e)

Specified by:

mouseDragged in interface java.awt.event.MouseMotionListener

adjustmentValueChanged

public void adjustmentValueChanged(java.awt.event.AdjustmentEvent e)

Specified by:

adjustmentValueChanged in interface java.awt.event.AdjustmentListener

lubricateUserInteraction

public void lubricateUserInteraction()

getViewportWidth

public int getViewportWidth()

How wide is the viewport in which the sequence is shown?

getSequenceWidth

public int getSequenceWidth()

What is the total width in pixels of the entire sequence?

Returns:

width of entire sequence in pixels

getFirstVisibleResidue

public Residue getFirstVisibleResidue()

Returns:

leftmost visible residue in the display, or null if no residues are visible.

getFinalVisibleResidue

public Residue getFinalVisibleResidue()