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org.geworkbench.util.sequences
Class SequenceViewWidget

java.lang.Object
  extended by java.awt.Component
      extended by java.awt.Container
          extended by javax.swing.JComponent
              extended by javax.swing.JPanel
                  extended by org.geworkbench.util.sequences.SequenceViewWidget
All Implemented Interfaces:
java.awt.image.ImageObserver, java.awt.MenuContainer, java.io.Serializable, javax.accessibility.Accessible
Direct Known Subclasses:
SequencePatternDisplayPanel
public class SequenceViewWidget
extends javax.swing.JPanel

Widget provides all GUI services for sequence panel displays. Widget is controlled by its associated component, SequenceViewAppComponent Copyright: Copyright (c) 2003 Company: Califano Lab

Version:
$Id: SequenceViewWidget.java 6692 2010-06-01 17:27:44Z zji $
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
protected  DSPanel<? extends DSGeneMarker> activatedMarkers
           
protected  CSSequenceSet activeSequenceDB
           
 javax.swing.JToolBar jToolBar1
           
static java.lang.String NONBASIC
           
 java.util.HashMap<CSSequence,PatternSequenceDisplayUtil> patternLocationsMatches
           
 DSCollection<DSMatchedPattern<DSSequence,CSSeqRegistration>> selectedPatterns
           
protected  SequenceViewWidgetPanel seqViewWPanel
           
protected  boolean 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
SequenceViewWidget()
           
 
Method Summary
protected  void fireModelChangedEvent(MicroarraySetViewEvent event)
           
 void getDataSetView()
           
 DSSequenceSet getSequenceDB()
           
 SequenceViewWidgetPanel getSeqViewWPanel()
           
 boolean initPanelView()
          Initiate the Panel, which should be used as the entry point.
 boolean isDirection()
           
 void jAllSequenceCheckBox_actionPerformed(java.awt.event.ActionEvent e)
           
 void jViewComboBox_actionPerformed(java.awt.event.ActionEvent e)
           
 void patternSelectionHasChanged(SequenceDiscoveryTableEvent e)
           
 void receive(ProjectEvent e, java.lang.Object source)
          receiveProjectSelection
protected  void refreshMaSetView()
           
 void removeButtons(java.lang.String aString)
          cleanButtons
 void sequenceDBUpdate(GeneSelectorEvent e)
          geneSelectorAction
 void seqViewWPanel_mouseMoved(java.awt.event.MouseEvent e)
           
 void setDirection(boolean direction)
           
 void setPatterns(DSCollection<DSMatchedPattern<DSSequence,CSSeqRegistration>> matches)
           
 void setSequenceDB(DSSequenceSet db)
           
 void updateBottomPanel()
           
 void updatePatternSeqMatches()
          Transform the patterns to patternsUtil class.
 
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, 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, 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
 

Field Detail

patternLocationsMatches

public java.util.HashMap<CSSequence,PatternSequenceDisplayUtil> patternLocationsMatches

selectedPatterns

public DSCollection<DSMatchedPattern<DSSequence,CSSeqRegistration>> selectedPatterns

jToolBar1

public javax.swing.JToolBar jToolBar1

NONBASIC

public static final java.lang.String NONBASIC
See Also:
Constant Field Values

seqViewWPanel

protected SequenceViewWidgetPanel seqViewWPanel

activeSequenceDB

protected CSSequenceSet activeSequenceDB

subsetMarkerOn

protected boolean subsetMarkerOn

activatedMarkers

protected DSPanel<? extends DSGeneMarker> activatedMarkers
Constructor Detail

SequenceViewWidget

public SequenceViewWidget()
Method Detail

removeButtons

public void removeButtons(java.lang.String aString)
cleanButtons

Parameters:
aString - String

receive

public void receive(ProjectEvent e,
                    java.lang.Object source)
receiveProjectSelection

Parameters:
e - ProjectEvent

sequenceDBUpdate

public void sequenceDBUpdate(GeneSelectorEvent e)
geneSelectorAction

Parameters:
e - GeneSelectorEvent

refreshMaSetView

protected void refreshMaSetView()

fireModelChangedEvent

protected void fireModelChangedEvent(MicroarraySetViewEvent event)

getDataSetView

public void getDataSetView()

patternSelectionHasChanged

public void patternSelectionHasChanged(SequenceDiscoveryTableEvent e)

updateBottomPanel

public void updateBottomPanel()

setSequenceDB

public void setSequenceDB(DSSequenceSet db)

setDirection

public void setDirection(boolean direction)

getSequenceDB

public DSSequenceSet getSequenceDB()

getSeqViewWPanel

public SequenceViewWidgetPanel getSeqViewWPanel()

isDirection

public boolean isDirection()

setPatterns

public void setPatterns(DSCollection<DSMatchedPattern<DSSequence,CSSeqRegistration>> matches)

jViewComboBox_actionPerformed

public void jViewComboBox_actionPerformed(java.awt.event.ActionEvent e)

seqViewWPanel_mouseMoved

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

updatePatternSeqMatches

public void updatePatternSeqMatches()
Transform the patterns to patternsUtil class. Child class should override this method.

initPanelView

public boolean initPanelView()
Initiate the Panel, which should be used as the entry point.

Returns:
boolean

jAllSequenceCheckBox_actionPerformed

public void jAllSequenceCheckBox_actionPerformed(java.awt.event.ActionEvent e)
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