org.geworkbench.util.promoter
Class SequencePatternDisplayPanel

java.lang.Object
  java.awt.Component
      java.awt.Container
          javax.swing.JComponent
              javax.swing.JPanel
                  org.geworkbench.util.sequences.SequenceViewWidget
                      org.geworkbench.util.promoter.SequencePatternDisplayPanel

All Implemented Interfaces:

java.awt.image.ImageObserver, java.awt.MenuContainer, java.io.Serializable, javax.accessibility.Accessible

public class SequencePatternDisplayPanel
extends SequenceViewWidget

Version:

$Id: SequencePatternDisplayPanel.java,v 1.20 2009-01-15 19:26:36 jiz Exp $

Author:

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.BaselineResizeBehavior, java.awt.Component.BltBufferStrategy, java.awt.Component.FlipBufferStrategy

Field Summary

Fields inherited from class org.geworkbench.util.sequences.SequenceViewWidget

activatedMarkers, activeSequenceDB, jToolBar1, NONBASIC, patternLocationsMatches, selectedPatterns, seqViewWPanel, subsetMarkerOn

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

SequencePatternDisplayPanel()

Method Summary

void	addAPattern(DSPattern<DSSequence,CSSeqRegistration> pt, Display dis, java.util.List<DSPatternMatch<DSSequence,CSSeqRegistration>> matches)
void	addMenuItem(javax.swing.JMenuItem saveItem)
void	addToolBarButton(javax.swing.AbstractButton jbutton)
java.util.Hashtable<DSPattern<DSSequence,CSSeqRegistration>,java.util.List<DSPatternMatch<DSSequence,CSSeqRegistration>>>	getPatternMatches()
java.util.HashMap	getPatternTFMatches()
void	initialize(DSSequenceSet seqDB)
void	paintComponent(java.awt.Graphics g)
void	removePattern(DSPattern<DSSequence,CSSeqRegistration> pt)
void	setDisplaySeqPattern(boolean displaySeqPattern)
void	setDisplayTF(boolean displayTF)
void	setPatternDisplay(java.util.HashMap patternDisplay)
void	setPatternMatches(java.util.Hashtable patternMatches)
void	setPatternTFMatches(java.util.HashMap patternTFMatches)
void	updatePatternSeqMatches() Transform the patterns to patternsUtil class.

Methods inherited from class org.geworkbench.util.sequences.SequenceViewWidget

fireModelChangedEvent, getDataSetView, getSequenceDB, getSeqViewWPanel, initPanelView, isDirection, jAllSequenceCheckBox_actionPerformed, jViewComboBox_actionPerformed, patternSelectionHasChanged, receive, refreshMaSetView, removeButtons, sequenceDBUpdate, seqViewWPanel_mouseMoved, setDirection, setPatterns, setSequenceDB, updateBottomPanel

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, isDoubleBuffered, isLightweightComponent, isManagingFocus, isOpaque, isOptimizedDrawingEnabled, isPaintingForPrint, isPaintingTile, isRequestFocusEnabled, isValidateRoot, paint, paintBorder, paintChildren, 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, 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, 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

Constructor Detail

SequencePatternDisplayPanel

public SequencePatternDisplayPanel()

Method Detail

addToolBarButton

public void addToolBarButton(javax.swing.AbstractButton jbutton)

addMenuItem

public void addMenuItem(javax.swing.JMenuItem saveItem)

updatePatternSeqMatches

public void updatePatternSeqMatches()

Transform the patterns to patternsUtil class. Child class should override this method.

Overrides:

updatePatternSeqMatches in class SequenceViewWidget

initialize

public void initialize(DSSequenceSet seqDB)

paintComponent

public void paintComponent(java.awt.Graphics g)

Overrides:

paintComponent in class javax.swing.JComponent

addAPattern

public void addAPattern(DSPattern<DSSequence,CSSeqRegistration> pt,
                        Display dis,
                        java.util.List<DSPatternMatch<DSSequence,CSSeqRegistration>> matches)

removePattern

public void removePattern(DSPattern<DSSequence,CSSeqRegistration> pt)

getPatternMatches

public java.util.Hashtable<DSPattern<DSSequence,CSSeqRegistration>,java.util.List<DSPatternMatch<DSSequence,CSSeqRegistration>>> getPatternMatches()

getPatternTFMatches

public java.util.HashMap getPatternTFMatches()

setPatternDisplay

public void setPatternDisplay(java.util.HashMap patternDisplay)

setPatternMatches

public void setPatternMatches(java.util.Hashtable patternMatches)

setDisplaySeqPattern

public void setDisplaySeqPattern(boolean displaySeqPattern)

setDisplayTF

public void setDisplayTF(boolean displayTF)

setPatternTFMatches

public void setPatternTFMatches(java.util.HashMap patternTFMatches)