edu.harvard.mgh.purcell.gPLINK2.forms
Class CCAssoc

java.lang.Object
  extended by java.awt.Component
      extended by java.awt.Container
          extended by java.awt.Window
              extended by java.awt.Dialog
                  extended by javax.swing.JDialog
                      extended by edu.harvard.mgh.purcell.gPLINK2.baseForm.Form
                          extended by edu.harvard.mgh.purcell.gPLINK2.forms.CCAssoc
All Implemented Interfaces:
java.awt.image.ImageObserver, java.awt.MenuContainer, java.io.Serializable, javax.accessibility.Accessible, javax.swing.RootPaneContainer, javax.swing.WindowConstants

public class CCAssoc
extends Form

See Also:
Serialized Form

Nested Class Summary
 
Nested classes/interfaces inherited from class edu.harvard.mgh.purcell.gPLINK2.baseForm.Form
Form.BrowseButton
 
Nested classes/interfaces inherited from class javax.swing.JDialog
javax.swing.JDialog.AccessibleJDialog
 
Nested classes/interfaces inherited from class java.awt.Dialog
java.awt.Dialog.AccessibleAWTDialog
 
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
(package private)  javax.swing.JCheckBox adjustButton
           
private static java.lang.Integer CELL_DEFAULT
           
(package private)  javax.swing.JCheckBox cellButton
           
private static java.lang.Double CI_DEFAULT
           
(package private)  javax.swing.JCheckBox ciButton
           
(package private)  javax.swing.JTextField ciText
           
(package private)  javax.swing.JTextField cText
           
(package private)  javax.swing.JRadioButton mBestButton
           
(package private)  javax.swing.JRadioButton mDomButton
           
(package private)  javax.swing.JRadioButton mGenButton
           
private static java.lang.Integer MPERM_DEFAULT
           
(package private)  javax.swing.JRadioButton mperm2Button
           
(package private)  javax.swing.JTextField mperm2Text
           
(package private)  javax.swing.JRadioButton mRecButton
           
(package private)  javax.swing.JRadioButton mTrendButton
           
static java.lang.String name
           
(package private)  javax.swing.JRadioButton perm2Button
           
 
Fields inherited from class edu.harvard.mgh.purcell.gPLINK2.baseForm.Form
filterButton, input, output, parent, thresholdButton, validateBodyAL, validateBodyDL, validBody
 
Fields inherited from class javax.swing.JDialog
accessibleContext, rootPane, rootPaneCheckingEnabled
 
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, EXIT_ON_CLOSE, HIDE_ON_CLOSE
 
Fields inherited from interface java.awt.image.ImageObserver
ABORT, ALLBITS, ERROR, FRAMEBITS, HEIGHT, PROPERTIES, SOMEBITS, WIDTH
 
Constructor Summary
CCAssoc(GPLINK mf)
           
 
Method Summary
protected  javax.swing.JPanel createBody()
          Create the body for this form.
protected  void isBodyValid()
          Check to see if the body is correctly filled out.
protected  java.lang.String processBody()
          Create the commandline based on the fields of this form.
 
Methods inherited from class edu.harvard.mgh.purcell.gPLINK2.baseForm.Form
addFilter, addThreshold, bundel, bundel, bundel, bundel, bundel, closeButtons, okForm, openButtons, resetFilter, resetThreshold
 
Methods inherited from class javax.swing.JDialog
addImpl, createRootPane, dialogInit, getAccessibleContext, getContentPane, getDefaultCloseOperation, getGlassPane, getJMenuBar, getLayeredPane, getRootPane, isDefaultLookAndFeelDecorated, isRootPaneCheckingEnabled, paramString, processWindowEvent, remove, setContentPane, setDefaultCloseOperation, setDefaultLookAndFeelDecorated, setGlassPane, setJMenuBar, setLayeredPane, setLayout, setRootPane, setRootPaneCheckingEnabled, update
 
Methods inherited from class java.awt.Dialog
addNotify, getTitle, hide, isModal, isResizable, isUndecorated, setModal, setResizable, setTitle, setUndecorated, show
 
Methods inherited from class java.awt.Window
addPropertyChangeListener, addPropertyChangeListener, addWindowFocusListener, addWindowListener, addWindowStateListener, applyResourceBundle, applyResourceBundle, createBufferStrategy, createBufferStrategy, dispose, finalize, getBufferStrategy, getFocusableWindowState, getFocusCycleRootAncestor, getFocusOwner, getFocusTraversalKeys, getGraphicsConfiguration, getInputContext, getListeners, getLocale, getMostRecentFocusOwner, getOwnedWindows, getOwner, getToolkit, getWarningString, getWindowFocusListeners, getWindowListeners, getWindowStateListeners, isActive, isAlwaysOnTop, isFocusableWindow, isFocusCycleRoot, isFocused, isLocationByPlatform, isShowing, pack, postEvent, processEvent, processWindowFocusEvent, processWindowStateEvent, removeWindowFocusListener, removeWindowListener, removeWindowStateListener, setAlwaysOnTop, setBounds, setCursor, setFocusableWindowState, setFocusCycleRoot, setLocationByPlatform, setLocationRelativeTo, 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, removeNotify, 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, remove, 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, setVisible, show, size, toString, transferFocus, transferFocusUpCycle
 
Methods inherited from class java.lang.Object
clone, equals, getClass, hashCode, notify, notifyAll, wait, wait, wait
 

Field Detail

name

public static java.lang.String name

ciButton

javax.swing.JCheckBox ciButton

adjustButton

javax.swing.JCheckBox adjustButton

cellButton

javax.swing.JCheckBox cellButton

mperm2Button

javax.swing.JRadioButton mperm2Button

perm2Button

javax.swing.JRadioButton perm2Button

mGenButton

javax.swing.JRadioButton mGenButton

mTrendButton

javax.swing.JRadioButton mTrendButton

mDomButton

javax.swing.JRadioButton mDomButton

mRecButton

javax.swing.JRadioButton mRecButton

mBestButton

javax.swing.JRadioButton mBestButton

ciText

javax.swing.JTextField ciText

cText

javax.swing.JTextField cText

mperm2Text

javax.swing.JTextField mperm2Text

CI_DEFAULT

private static java.lang.Double CI_DEFAULT

MPERM_DEFAULT

private static java.lang.Integer MPERM_DEFAULT

CELL_DEFAULT

private static java.lang.Integer CELL_DEFAULT
Constructor Detail

CCAssoc

public CCAssoc(GPLINK mf)
Method Detail

createBody

protected javax.swing.JPanel createBody()
Description copied from class: Form
Create the body for this form.

Specified by:
createBody in class Form
Returns:
A JPanel that holds the body of this form.

isBodyValid

protected void isBodyValid()
Description copied from class: Form
Check to see if the body is correctly filled out. If it is then the forms validBody boolean flag is set to true, otherwise it is set to false.

Specified by:
isBodyValid in class Form

processBody

protected java.lang.String processBody()
Description copied from class: Form
Create the commandline based on the fields of this form.

Specified by:
processBody in class Form
Returns:
A String that is the PLINK command for this from. Note that this includes the any noted plink prefixes and the plink path.