apollo.gui
Class ApolloFrame

java.lang.Object
  java.awt.Component
      java.awt.Container
          java.awt.Window
              java.awt.Frame
                  javax.swing.JFrame
                      apollo.gui.ApolloFrame

All Implemented Interfaces:

DataLoadListener, ControlledObjectI, LazyLoadListener, java.awt.image.ImageObserver, java.awt.MenuContainer, java.io.Serializable, java.util.EventListener, javax.accessibility.Accessible, javax.swing.RootPaneContainer, javax.swing.WindowConstants

Direct Known Subclasses:

CompositeApolloFrame

public abstract class ApolloFrame
extends javax.swing.JFrame
implements ControlledObjectI, LazyLoadListener, DataLoadListener

CompositeApolloFrame subclass is now the working instantiation of ApolloFrame. These should eventually be merged - or done with a has-a

See Also:

Serialized Form

Nested Class Summary

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

javax.swing.JFrame.AccessibleJFrame

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

java.awt.Frame.AccessibleAWTFrame

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

java.awt.Window.AccessibleAWTWindow

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 org.apache.log4j.Logger

logger

Fields inherited from class javax.swing.JFrame

accessibleContext, EXIT_ON_CLOSE, rootPane, rootPaneCheckingEnabled

Fields inherited from class java.awt.Frame

CROSSHAIR_CURSOR, DEFAULT_CURSOR, E_RESIZE_CURSOR, HAND_CURSOR, ICONIFIED, MAXIMIZED_BOTH, MAXIMIZED_HORIZ, MAXIMIZED_VERT, MOVE_CURSOR, N_RESIZE_CURSOR, NE_RESIZE_CURSOR, NORMAL, NW_RESIZE_CURSOR, S_RESIZE_CURSOR, SE_RESIZE_CURSOR, SW_RESIZE_CURSOR, TEXT_CURSOR, W_RESIZE_CURSOR, WAIT_CURSOR

Fields inherited from class java.awt.Component

BOTTOM_ALIGNMENT, CENTER_ALIGNMENT, LEFT_ALIGNMENT, RIGHT_ALIGNMENT, TOP_ALIGNMENT

Fields inherited from interface javax.swing.WindowConstants

DISPOSE_ON_CLOSE, DO_NOTHING_ON_CLOSE, HIDE_ON_CLOSE

Fields inherited from interface java.awt.image.ImageObserver

ABORT, ALLBITS, ERROR, FRAMEBITS, HEIGHT, PROPERTIES, SOMEBITS, WIDTH

Constructor Summary

protected

ApolloFrame() constructor for singleton.

Method Summary

void	applyLayout(misc.JIniFile iniFile, boolean updateBaseLocation)
static void	centerOnScreen(java.awt.Component c) centers component on screen - put in a util class?
void	completeGUIInitialization() This is only called once, from ApolloRunner when the gui is first coming up, after the first dataset is loaded (CAF.loadData())
static CompositeApolloFrame	getApolloFrame() I think eventually CompostieApolloFrame and ApolloFrame should be merged
protected CompositeDataHolder	getCompositeDataHolder()
Controller	getController() ControlledObjectI interface - this is the master controller (set by CompositeApolloFrame)
java.lang.Object	getControllerWindow() Shouldnt this return Window - would we ever want a non-window?
protected static CurationManager	getCurationManager()
protected GuiCurationState	getCurationState(int i)
static javax.swing.JFrame	getFrame()
int	getPreferredFrameHeight()
javax.swing.JSplitPane	getSplitPane() Returns split pane between evidence panel(s) and syntenyPanel(szaps), creates one on first call.
SyntenyPanel	getSyntenyPanel()
boolean	handleDataLoadEvent(DataLoadEvent evt) This method got inadvertently disabled with composite frame merging (AF was listening to a unused Controller).
boolean	handleLazyLoadEvent(LazyLoadEvent evt) woops - this is currently disabled as apollo frame is no longer listening to the controller - to reenable this should either be moved or made an inner class that does its own listening to the controller but it sounds like maybe this dialog was annoying and we may not want to reenable it.
void	loadSyntenyLink(SeqFeatureI link) For now this is a no-op overridden by CompositeApolloFrame - eventually a regular apollo frame would load a second species and go into multi species This should be migrated to LoatUtil/DataLoader.
boolean	needsAutoRemoval() If getControllerWindow is non null, and needsAutoRemoval is true then Controller will automatically remove the ControlledObjectI as a listener when its ControllerWindow is closing.
void	saveLayout(misc.JIniFile iniFile)
void	setController(Controller c) no-op
protected void	setSyntenyPanel(SyntenyPanel panel)
void	setVisible(boolean state) Override JFrame.setVisible.

Methods inherited from class javax.swing.JFrame

addImpl, createRootPane, frameInit, getAccessibleContext, getContentPane, getDefaultCloseOperation, getGlassPane, getJMenuBar, getLayeredPane, getRootPane, isDefaultLookAndFeelDecorated, isRootPaneCheckingEnabled, paramString, processWindowEvent, remove, setContentPane, setDefaultCloseOperation, setDefaultLookAndFeelDecorated, setGlassPane, setIconImage, setJMenuBar, setLayeredPane, setLayout, setRootPane, setRootPaneCheckingEnabled, update

Methods inherited from class java.awt.Frame

addNotify, finalize, getCursorType, getExtendedState, getFrames, getIconImage, getMaximizedBounds, getMenuBar, getState, getTitle, isResizable, isUndecorated, remove, removeNotify, setCursor, setExtendedState, setMaximizedBounds, setMenuBar, setResizable, setState, setTitle, setUndecorated

Methods inherited from class java.awt.Window

addPropertyChangeListener, addPropertyChangeListener, addWindowFocusListener, addWindowListener, addWindowStateListener, applyResourceBundle, applyResourceBundle, createBufferStrategy, createBufferStrategy, dispose, getBufferStrategy, getFocusableWindowState, getFocusCycleRootAncestor, getFocusOwner, getFocusTraversalKeys, getGraphicsConfiguration, getInputContext, getListeners, getLocale, getMostRecentFocusOwner, getOwnedWindows, getOwner, getToolkit, getWarningString, getWindowFocusListeners, getWindowListeners, getWindowStateListeners, hide, isActive, isAlwaysOnTop, isFocusableWindow, isFocusCycleRoot, isFocused, isLocationByPlatform, isShowing, pack, postEvent, processEvent, processWindowFocusEvent, processWindowStateEvent, removeWindowFocusListener, removeWindowListener, removeWindowStateListener, setAlwaysOnTop, setBounds, setCursor, setFocusableWindowState, setFocusCycleRoot, setLocationByPlatform, setLocationRelativeTo, show, toBack, toFront

Methods inherited from class java.awt.Container

add, add, add, add, add, addContainerListener, applyComponentOrientation, areFocusTraversalKeysSet, countComponents, deliverEvent, doLayout, findComponentAt, findComponentAt, getAlignmentX, getAlignmentY, getComponent, getComponentAt, getComponentAt, getComponentCount, getComponents, getComponentZOrder, getContainerListeners, getFocusTraversalPolicy, getInsets, getLayout, getMaximumSize, getMinimumSize, getMousePosition, getPreferredSize, insets, invalidate, isAncestorOf, isFocusCycleRoot, isFocusTraversalPolicyProvider, isFocusTraversalPolicySet, layout, list, list, locate, minimumSize, paint, paintComponents, preferredSize, print, printComponents, processContainerEvent, remove, removeAll, removeContainerListener, setComponentZOrder, setFocusTraversalKeys, setFocusTraversalPolicy, setFocusTraversalPolicyProvider, setFont, 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, contains, createImage, createImage, createVolatileImage, createVolatileImage, disable, disableEvents, dispatchEvent, enable, enable, enableEvents, enableInputMethods, firePropertyChange, firePropertyChange, firePropertyChange, firePropertyChange, firePropertyChange, firePropertyChange, firePropertyChange, firePropertyChange, firePropertyChange, getBackground, getBounds, getBounds, getColorModel, getComponentListeners, getComponentOrientation, getCursor, getDropTarget, getFocusListeners, getFocusTraversalKeysEnabled, getFont, getFontMetrics, getForeground, getGraphics, getHeight, getHierarchyBoundsListeners, getHierarchyListeners, getIgnoreRepaint, getInputMethodListeners, getInputMethodRequests, getKeyListeners, getLocation, getLocation, getLocationOnScreen, getMouseListeners, getMouseMotionListeners, getMousePosition, getMouseWheelListeners, getName, getParent, getPeer, getPropertyChangeListeners, getPropertyChangeListeners, getSize, getSize, getTreeLock, getWidth, getX, getY, gotFocus, handleEvent, hasFocus, imageUpdate, inside, isBackgroundSet, isCursorSet, isDisplayable, isDoubleBuffered, isEnabled, isFocusable, isFocusOwner, isFocusTraversable, isFontSet, isForegroundSet, isLightweight, isMaximumSizeSet, isMinimumSizeSet, isOpaque, isPreferredSizeSet, isValid, isVisible, keyDown, keyUp, list, list, list, location, lostFocus, mouseDown, mouseDrag, mouseEnter, mouseExit, mouseMove, mouseUp, move, nextFocus, paintAll, prepareImage, prepareImage, printAll, processComponentEvent, processFocusEvent, processHierarchyBoundsEvent, processHierarchyEvent, processInputMethodEvent, processKeyEvent, processMouseEvent, processMouseMotionEvent, processMouseWheelEvent, removeComponentListener, removeFocusListener, removeHierarchyBoundsListener, removeHierarchyListener, removeInputMethodListener, removeKeyListener, removeMouseListener, removeMouseMotionListener, removeMouseWheelListener, removePropertyChangeListener, removePropertyChangeListener, repaint, repaint, repaint, repaint, requestFocus, requestFocus, requestFocusInWindow, requestFocusInWindow, reshape, resize, resize, setBackground, setBounds, setComponentOrientation, setDropTarget, setEnabled, setFocusable, setFocusTraversalKeysEnabled, setForeground, setIgnoreRepaint, setLocale, setLocation, setLocation, setMaximumSize, setMinimumSize, setName, setPreferredSize, setSize, setSize, show, size, toString, transferFocus, transferFocusUpCycle

Methods inherited from class java.lang.Object

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

Methods inherited from interface java.awt.MenuContainer

getFont, postEvent

Field Detail

logger

protected static final org.apache.log4j.Logger logger

Constructor Detail

ApolloFrame

protected ApolloFrame()

constructor for singleton. set controller to master controller.

Method Detail

getApolloFrame

public static CompositeApolloFrame getApolloFrame()

I think eventually CompostieApolloFrame and ApolloFrame should be merged

getFrame

public static javax.swing.JFrame getFrame()

setController

public void setController(Controller c)

no-op

Specified by:

setController in interface ControlledObjectI

getController

public Controller getController()

ControlledObjectI interface - this is the master controller (set by CompositeApolloFrame)

Specified by:

getController in interface ControlledObjectI

getControllerWindow

public java.lang.Object getControllerWindow()

Description copied from interface: ControlledObjectI

Shouldnt this return Window - would we ever want a non-window?

Specified by:

getControllerWindow in interface ControlledObjectI

needsAutoRemoval

public boolean needsAutoRemoval()

Description copied from interface: ControlledObjectI

If getControllerWindow is non null, and needsAutoRemoval is true then Controller will automatically remove the ControlledObjectI as a listener when its ControllerWindow is closing. If getControllerWindow is null needsAutoRemoval is meaningless. Rename this removeAsListenerOnWindowClose?

Specified by:

needsAutoRemoval in interface ControlledObjectI

handleDataLoadEvent

public boolean handleDataLoadEvent(DataLoadEvent evt)

This method got inadvertently disabled with composite frame merging (AF was listening to a unused Controller). But when it was disabled no visible difference in apollo that i could discern. EvidencePanel gets reset via ApolloPanel. Is the invalidate/validate really necasary - dont have a grasp on this If it isnt necasary we should delete this method Actually Im now thinking that DataListener and DataLoadListener are somewhat redundant and should be merged - though DataListener has both newData and dataLoadingDone - done allows for cursor changing.

Specified by:

handleDataLoadEvent in interface DataLoadListener

handleLazyLoadEvent

public boolean handleLazyLoadEvent(LazyLoadEvent evt)

woops - this is currently disabled as apollo frame is no longer listening to the controller - to reenable this should either be moved or made an inner class that does its own listening to the controller but it sounds like maybe this dialog was annoying and we may not want to reenable it. in any case this probably doesnt belong in apollo frame

Specified by:

handleLazyLoadEvent in interface LazyLoadListener

setVisible

public void setVisible(boolean state)

Override JFrame.setVisible. set szaps visible.

Overrides:

setVisible in class java.awt.Component

getPreferredFrameHeight

public int getPreferredFrameHeight()

getSplitPane

public javax.swing.JSplitPane getSplitPane()

Returns split pane between evidence panel(s) and syntenyPanel(szaps), creates one on first call. EvPanOrientMan actually adds in the synteny and ev panel.

completeGUIInitialization

public void completeGUIInitialization()

This is only called once, from ApolloRunner when the gui is first coming up, after the first dataset is loaded (CAF.loadData())

saveLayout

public void saveLayout(misc.JIniFile iniFile)

applyLayout

public void applyLayout(misc.JIniFile iniFile,
                        boolean updateBaseLocation)

centerOnScreen

public static void centerOnScreen(java.awt.Component c)

centers component on screen - put in a util class?

loadSyntenyLink

public void loadSyntenyLink(SeqFeatureI link)

For now this is a no-op overridden by CompositeApolloFrame - eventually a regular apollo frame would load a second species and go into multi species This should be migrated to LoatUtil/DataLoader.

getSyntenyPanel

public SyntenyPanel getSyntenyPanel()

setSyntenyPanel

protected void setSyntenyPanel(SyntenyPanel panel)

getCompositeDataHolder

protected CompositeDataHolder getCompositeDataHolder()

getCurationManager

protected static CurationManager getCurationManager()

getCurationState

protected GuiCurationState getCurationState(int i)