genomicsnpanalyzer.gui
Class MainContentPane

java.lang.Object
  java.awt.Component
      java.awt.Container
          javax.swing.JComponent
              javax.swing.JSplitPane
                  genomicsnpanalyzer.gui.MainContentPane

All Implemented Interfaces:

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

public class MainContentPane
extends javax.swing.JSplitPane
implements java.awt.event.ActionListener, javax.swing.event.ChangeListener

See Also:

Serialized Form

Nested Class Summary

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

javax.swing.JSplitPane.AccessibleJSplitPane

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

GenomeBrowserPane	genomeBrowserPane
IndelListTablePane	indelpane
SNPListTablePane	snppane
SVListTablePane	svpane

Fields inherited from class javax.swing.JSplitPane

BOTTOM, CONTINUOUS_LAYOUT_PROPERTY, continuousLayout, DIVIDER, DIVIDER_LOCATION_PROPERTY, DIVIDER_SIZE_PROPERTY, dividerSize, HORIZONTAL_SPLIT, LAST_DIVIDER_LOCATION_PROPERTY, lastDividerLocation, LEFT, leftComponent, ONE_TOUCH_EXPANDABLE_PROPERTY, oneTouchExpandable, orientation, ORIENTATION_PROPERTY, RESIZE_WEIGHT_PROPERTY, RIGHT, rightComponent, TOP, VERTICAL_SPLIT

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

MainContentPane(Main Parent)
Creates a new instance of SeqPlotPane

Method Summary

void	actionPerformed(java.awt.event.ActionEvent e)
void	addDensityTabPane()
void	addFilterTabPane()
void	addGenomeBrowserTabPane()
void	addIndelTabPane()
void	addLogPane()
void	addProjectPane()
void	addSNPListTabPane()
void	addSummaryPane_indel_nonrs()
void	addSummaryPane_indel_rs()
void	addSummaryPane_indel()
void	addSummaryPane_nonrs()
void	addSummaryPane_rs()
void	addSummaryPane()
void	addSVTabPane()
void	filterByFunctionAndGene(java.lang.String taskflag)
void	HandleFilterRegionMenu()
void	HandleGeneBiotypeFilter()
void	HandleGeneFilter()
void	HandleGOFilter()
void	HandleIndelScoreFilter()
void	HandleOmimDisorderFilter()
void	HandleOmimGeneFilter()
void	HandlePathwayFilter()
void	HandleScoreFilter()
void	HandleSubjectFilter()
void	HandleSVScoreFilter()
boolean	highlightTab(java.lang.String target)
void	LockGenomeBrowserPanel()
void	ResetAllFilters()
void	ResetGeneFilters()
void	resetTables()
void	stateChanged(javax.swing.event.ChangeEvent e)
void	UnlockGenomeBrowserPanel()
void	updateDensityOverviewPane(java.awt.image.BufferedImage densimg)
void	updateFilterPanel()
void	updateGenomeBrowserCoredataLoadedLabel()
void	updateGenomeBrowserImage(java.awt.image.BufferedImage img, GenomeBrowserCoord genomeBrowserCoord, GenomeBrowserData genomeBrowserData, int topPartSize)
void	updateGenomeBrowserInitiationStatus()
void	updateGenomeBrowserSelectedChrRegion(java.lang.String chr, int start, int end)
void	updateSummaryPane_indel_nonrs(java.awt.image.BufferedImage sumimg)
void	updateSummaryPane_indel_rs(java.awt.image.BufferedImage sumimg)
void	updateSummaryPane_indel(java.awt.image.BufferedImage sumimg)
void	updateSummaryPane_nonrs(java.awt.image.BufferedImage sumimg)
void	updateSummaryPane_rs(java.awt.image.BufferedImage sumimg)
void	updateSummaryPane(java.awt.image.BufferedImage sumimg)
void	updateTables()

Methods inherited from class javax.swing.JSplitPane

addImpl, getAccessibleContext, getBottomComponent, getDividerLocation, getDividerSize, getLastDividerLocation, getLeftComponent, getMaximumDividerLocation, getMinimumDividerLocation, getOrientation, getResizeWeight, getRightComponent, getTopComponent, getUI, getUIClassID, isContinuousLayout, isOneTouchExpandable, isValidateRoot, paintChildren, paramString, remove, remove, removeAll, resetToPreferredSizes, setBottomComponent, setContinuousLayout, setDividerLocation, setDividerLocation, setDividerSize, setLastDividerLocation, setLeftComponent, setOneTouchExpandable, setOrientation, setResizeWeight, setRightComponent, setTopComponent, 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, paint, paintBorder, 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, 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, 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

snppane

public SNPListTablePane snppane

indelpane

public IndelListTablePane indelpane

svpane

public SVListTablePane svpane

genomeBrowserPane

public GenomeBrowserPane genomeBrowserPane

Constructor Detail

MainContentPane

public MainContentPane(Main Parent)

Creates a new instance of SeqPlotPane

Method Detail

highlightTab

public boolean highlightTab(java.lang.String target)

LockGenomeBrowserPanel

public void LockGenomeBrowserPanel()

UnlockGenomeBrowserPanel

public void UnlockGenomeBrowserPanel()

addSNPListTabPane

public void addSNPListTabPane()

addIndelTabPane

public void addIndelTabPane()

addSVTabPane

public void addSVTabPane()

addGenomeBrowserTabPane

public void addGenomeBrowserTabPane()

addDensityTabPane

public void addDensityTabPane()

addFilterTabPane

public void addFilterTabPane()

addLogPane

public void addLogPane()

addSummaryPane

public void addSummaryPane()

addSummaryPane_nonrs

public void addSummaryPane_nonrs()

addSummaryPane_rs

public void addSummaryPane_rs()

addSummaryPane_indel

public void addSummaryPane_indel()

addSummaryPane_indel_nonrs

public void addSummaryPane_indel_nonrs()

addSummaryPane_indel_rs

public void addSummaryPane_indel_rs()

addProjectPane

public void addProjectPane()

HandlePathwayFilter

public void HandlePathwayFilter()

HandleGeneFilter

public void HandleGeneFilter()

HandleGeneBiotypeFilter

public void HandleGeneBiotypeFilter()

HandleGOFilter

public void HandleGOFilter()

HandleOmimGeneFilter

public void HandleOmimGeneFilter()

HandleOmimDisorderFilter

public void HandleOmimDisorderFilter()

HandleSubjectFilter

public void HandleSubjectFilter()

HandleFilterRegionMenu

public void HandleFilterRegionMenu()

HandleScoreFilter

public void HandleScoreFilter()

HandleIndelScoreFilter

public void HandleIndelScoreFilter()

HandleSVScoreFilter

public void HandleSVScoreFilter()

updateTables

public void updateTables()

resetTables

public void resetTables()

filterByFunctionAndGene

public void filterByFunctionAndGene(java.lang.String taskflag)

ResetAllFilters

public void ResetAllFilters()

ResetGeneFilters

public void ResetGeneFilters()

updateFilterPanel

public void updateFilterPanel()

updateGenomeBrowserInitiationStatus

public void updateGenomeBrowserInitiationStatus()

updateGenomeBrowserCoredataLoadedLabel

public void updateGenomeBrowserCoredataLoadedLabel()

updateGenomeBrowserSelectedChrRegion

public void updateGenomeBrowserSelectedChrRegion(java.lang.String chr,
                                                 int start,
                                                 int end)

updateGenomeBrowserImage

public void updateGenomeBrowserImage(java.awt.image.BufferedImage img,
                                     GenomeBrowserCoord genomeBrowserCoord,
                                     GenomeBrowserData genomeBrowserData,
                                     int topPartSize)

updateSummaryPane

public void updateSummaryPane(java.awt.image.BufferedImage sumimg)

updateSummaryPane_nonrs

public void updateSummaryPane_nonrs(java.awt.image.BufferedImage sumimg)

updateSummaryPane_rs

public void updateSummaryPane_rs(java.awt.image.BufferedImage sumimg)

updateSummaryPane_indel

public void updateSummaryPane_indel(java.awt.image.BufferedImage sumimg)

updateSummaryPane_indel_nonrs

public void updateSummaryPane_indel_nonrs(java.awt.image.BufferedImage sumimg)

updateSummaryPane_indel_rs

public void updateSummaryPane_indel_rs(java.awt.image.BufferedImage sumimg)

updateDensityOverviewPane

public void updateDensityOverviewPane(java.awt.image.BufferedImage densimg)

actionPerformed

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

Specified by:

actionPerformed in interface java.awt.event.ActionListener

stateChanged

public void stateChanged(javax.swing.event.ChangeEvent e)

Specified by:

stateChanged in interface javax.swing.event.ChangeListener