apollo.gui.detailviewers.sequencealigner
Class AnnotationRighClickMenu

java.lang.Object
  java.awt.Component
      java.awt.Container
          javax.swing.JComponent
              javax.swing.JPopupMenu
                  apollo.gui.detailviewers.sequencealigner.AnnotationRighClickMenu

All Implemented Interfaces:

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

public class AnnotationRighClickMenu
extends javax.swing.JPopupMenu

This is the popup menu that gets displayed when you right click on an annotation.

See Also:

Serialized Form

Nested Class Summary

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

javax.swing.JPopupMenu.AccessibleJPopupMenu, javax.swing.JPopupMenu.Separator

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 javax.swing.JMenuItem	creaateIntronMenuItem
protected javax.swing.JMenuItem	createExonMenuItem
protected javax.swing.JMenuItem	deleteExonMenuItem
protected javax.swing.JMenuItem	deletionMenuItem
protected javax.swing.JMenuItem	displaySequenceMenuItem
protected javax.swing.JMenuItem	findSequenceMenuItem
protected javax.swing.JMenuItem	goToMenuItem
protected javax.swing.JMenuItem	insertionMenuItem
protected javax.swing.JMenuItem	merge3PrimeMenuItem
protected javax.swing.JMenuItem	merge5PrimeMenuItem
protected javax.swing.JMenuItem	minus1FrameShiftMenuItem
protected javax.swing.JMenuItem	plus1FrameShiftMenuItem
protected javax.swing.JMenuItem	removeAdjustmentMenuItem
protected javax.swing.JMenu	sequencingErrorSubMenu
protected javax.swing.JMenuItem	set3PrimeMenuItem
protected javax.swing.JMenuItem	set5PrimeMenuItem
protected javax.swing.JMenuItem	setTranslationStartMenuItem
protected javax.swing.JMenuItem	substitutionMenuItem

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

AnnotationRighClickMenu(GuiCurationState curationState, MultiTierPanel panel)
Constructor

Method Summary

void	formatRightClickMenu(int pos, int dnapos, int tier) Updates menu to reflect the options available at the given position and tier.
BaseScrollable	getScrollableObject() Gets the scrollable object for this menu
void	setScrollableObject(BaseScrollable scrollableObject) Sets the scrollable object for this menu

Methods inherited from class javax.swing.JPopupMenu

add, add, add, addMenuKeyListener, addPopupMenuListener, addSeparator, createActionChangeListener, createActionComponent, firePopupMenuCanceled, firePopupMenuWillBecomeInvisible, firePopupMenuWillBecomeVisible, getAccessibleContext, getComponent, getComponentAtIndex, getComponentIndex, getDefaultLightWeightPopupEnabled, getInvoker, getLabel, getMargin, getMenuKeyListeners, getPopupMenuListeners, getSelectionModel, getSubElements, getUI, getUIClassID, insert, insert, isBorderPainted, isLightWeightPopupEnabled, isPopupTrigger, isVisible, menuSelectionChanged, pack, paintBorder, paramString, processFocusEvent, processKeyEvent, processKeyEvent, processMouseEvent, remove, removeMenuKeyListener, removePopupMenuListener, setBorderPainted, setDefaultLightWeightPopupEnabled, setInvoker, setLabel, setLightWeightPopupEnabled, setLocation, setPopupSize, setPopupSize, setSelected, setSelectionModel, setUI, setVisible, show, 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, 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, isPaintingTile, isRequestFocusEnabled, isValidateRoot, paint, paintChildren, paintComponent, paintImmediately, paintImmediately, print, printAll, printBorder, printChildren, printComponent, processComponentKeyEvent, processKeyBinding, 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, 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, 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, keyDown, keyUp, list, list, list, location, lostFocus, mouseDown, mouseDrag, mouseEnter, mouseExit, mouseMove, mouseUp, move, nextFocus, paintAll, postEvent, prepareImage, prepareImage, processComponentEvent, 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, 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

creaateIntronMenuItem

protected javax.swing.JMenuItem creaateIntronMenuItem

createExonMenuItem

protected javax.swing.JMenuItem createExonMenuItem

merge5PrimeMenuItem

protected javax.swing.JMenuItem merge5PrimeMenuItem

merge3PrimeMenuItem

protected javax.swing.JMenuItem merge3PrimeMenuItem

set5PrimeMenuItem

protected javax.swing.JMenuItem set5PrimeMenuItem

set3PrimeMenuItem

protected javax.swing.JMenuItem set3PrimeMenuItem

deleteExonMenuItem

protected javax.swing.JMenuItem deleteExonMenuItem

setTranslationStartMenuItem

protected javax.swing.JMenuItem setTranslationStartMenuItem

plus1FrameShiftMenuItem

protected javax.swing.JMenuItem plus1FrameShiftMenuItem

minus1FrameShiftMenuItem

protected javax.swing.JMenuItem minus1FrameShiftMenuItem

insertionMenuItem

protected javax.swing.JMenuItem insertionMenuItem

deletionMenuItem

protected javax.swing.JMenuItem deletionMenuItem

substitutionMenuItem

protected javax.swing.JMenuItem substitutionMenuItem

removeAdjustmentMenuItem

protected javax.swing.JMenuItem removeAdjustmentMenuItem

sequencingErrorSubMenu

protected javax.swing.JMenu sequencingErrorSubMenu

findSequenceMenuItem

protected javax.swing.JMenuItem findSequenceMenuItem

displaySequenceMenuItem

protected javax.swing.JMenuItem displaySequenceMenuItem

goToMenuItem

protected javax.swing.JMenuItem goToMenuItem

Constructor Detail

AnnotationRighClickMenu

public AnnotationRighClickMenu(GuiCurationState curationState,
                               MultiTierPanel panel)

Constructor

Parameters:

curationState -

panel - should be the annotation panel

Method Detail

getScrollableObject

public BaseScrollable getScrollableObject()

Gets the scrollable object for this menu

Returns:

setScrollableObject

public void setScrollableObject(BaseScrollable scrollableObject)

Sets the scrollable object for this menu

Parameters:

scrollableObject - this is the object that will be affected by the "Find Sequence" and "Go To" actions

formatRightClickMenu

public void formatRightClickMenu(int pos,
                                 int dnapos,
                                 int tier)

Updates menu to reflect the options available at the given position and tier.

Parameters:

pos - - tier position

tier -