apollo.gui
Class FindPanel

java.lang.Object
  java.awt.Component
      java.awt.Container
          javax.swing.JComponent
              javax.swing.JPanel
                  apollo.gui.ControlledPanel
                      apollo.gui.FindPanel

All Implemented Interfaces:

DataLoadListener, ControlledObjectI, java.awt.event.ActionListener, java.awt.image.ImageObserver, java.awt.MenuContainer, java.io.Serializable, java.util.EventListener, javax.accessibility.Accessible

public class FindPanel
extends ControlledPanel
implements java.awt.event.ActionListener, ControlledObjectI, DataLoadListener

A ControlledPanel which displays the find dialog (for name, base position and sequence). 10/2003: David Goodstein added regular expression searching. He mentioned the following: 0) all searches are case insensitive 1) if regular expression is NOT selected: -it is always a prefix match 2) if regular expression IS selected, it a "contains" match, meaning you should prepend "^" to your search string for a prefix match, append "$" to your search string for a suffix match, and sandwich between "^" and "$" for an exact match 3)for NAME searches, even if regular expression is NOT selected, you can use "*" as a wildcard character (i convert it to ".*" internally) 4) avoid nesting parenthesis on regexp SEQUENCE searches...the reverse-complementing of the regexp string will likely get funky. I don't expect anyone will want to do this, however. 5) i)on SEQUENCE searches, avoid like the plague constructs that can match an arbitrary number of times: atcg[atgc]+ggadd OR atcg.+ggadd This will greedily grab for the longest sequence that is flanked by atcg and ggadd, so you'll likely get only 2 or 3 hits (it does not search within a region that has already been matched). You're better off with atcg[atgc]{1,25}ggadd while will pull out all the matches flanked by atcg and ggadd that have at least one and up to 25 flanking characters 6) for Regexp searches, no need to flank with wildcards, as these are "contains" searches. For SEQUENCE searches, flanking with "^" and "$" doesn't really make sense.

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 static java.awt.Color	color
protected static org.apache.log4j.Logger	logger

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

FindPanel(GuiCurationState cs)

Method Summary

void	actionPerformed(java.awt.event.ActionEvent evt) Handles all buttons and fields, does name, position, and sequence searching
void	addNotify() override Component.addNotify, called when added to parent.
void	componentInit()
void	fireBaseFocusEvent(int pos)
void	fireBaseFocusEvent(java.lang.String pos) Doesnt need to check if its numeric because of NumericKeyFilter.
Controller	getController() Gets the Controller for the object
boolean	handleDataLoadEvent(DataLoadEvent evt)
void	setController(Controller c) Sets the Controller for the object

Methods inherited from class apollo.gui.ControlledPanel

getControllerWindow, needsAutoRemoval

Methods inherited from class javax.swing.JPanel

getAccessibleContext, getUI, getUIClassID, paramString, setUI, updateUI

Methods inherited from class javax.swing.JComponent

addAncestorListener, 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, 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

Methods inherited from interface apollo.gui.ControlledObjectI

getControllerWindow, needsAutoRemoval

Field Detail

logger

protected static final org.apache.log4j.Logger logger

color

protected static java.awt.Color color

Constructor Detail

FindPanel

public FindPanel(GuiCurationState cs)

Method Detail

setController

public void setController(Controller c)

Description copied from interface: ControlledObjectI

Sets the Controller for the object

Specified by:

setController in interface ControlledObjectI

Specified by:

setController in class ControlledPanel

getController

public Controller getController()

Description copied from interface: ControlledObjectI

Gets the Controller for the object

Specified by:

getController in interface ControlledObjectI

Specified by:

getController in class ControlledPanel

componentInit

public void componentInit()

actionPerformed

public void actionPerformed(java.awt.event.ActionEvent evt)

Handles all buttons and fields, does name, position, and sequence searching

Specified by:

actionPerformed in interface java.awt.event.ActionListener

handleDataLoadEvent

public boolean handleDataLoadEvent(DataLoadEvent evt)

Specified by:

handleDataLoadEvent in interface DataLoadListener

addNotify

public void addNotify()

Description copied from class: ControlledPanel

override Component.addNotify, called when added to parent. For many ControlledObjects this is when they add themselves as listeners to the controller. At add time can find ancestor of self for window control, I assume this is why its done here. Not a big deal to add to same controller twice as Controller checks for that

Overrides:

addNotify in class ControlledPanel

fireBaseFocusEvent

public void fireBaseFocusEvent(java.lang.String pos)

Doesnt need to check if its numeric because of NumericKeyFilter. 6/2005: Actually, that's not always true--the NumericKeyFilter prevents you from typing non-numbers in the box, but if you copy and paste a string from somewhere else into the box, it lets you paste letters and then throws an exception on parseInt.

fireBaseFocusEvent

public void fireBaseFocusEvent(int pos)