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java.lang.Objectjava.awt.Component
java.awt.Container
java.awt.Window
java.awt.Frame
javax.swing.JFrame
edu.cmu.cs.sb.stem.ProfileGui
public class ProfileGui
Class for interface display for all the genes assigned to the same profile
| 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.BaselineResizeBehavior, java.awt.Component.BltBufferStrategy, java.awt.Component.FlipBufferStrategy |
| Field Summary |
|---|
| 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 | |
|---|---|
ProfileGui(STEM_DataSet theDataSet,
int nprofile,
int[] ranklookup,
java.util.HashSet inames,
int ncompareprofile,
java.lang.String szIntersect,
java.lang.String szGene,
java.lang.String szSpot,
GenePlotPanel thegeneplotpanel,
ChromFrame cf)
Constructor renders the display interface |
|
| Method Summary | |
|---|---|
static java.lang.String |
clusterArrayToString(java.util.ArrayList alcprofiles)
Static method that returns an array of profiles, a string with their profile IDs |
void |
componentHidden(java.awt.event.ComponentEvent e)
Empty method |
void |
componentMoved(java.awt.event.ComponentEvent e)
Empty method |
void |
componentResized(java.awt.event.ComponentEvent e)
Empty method |
void |
componentShown(java.awt.event.ComponentEvent e)
Empty method |
void |
drawintersectgo(java.awt.Color fillColor)
Draws button for GO table for set of genes in a comparison intersection |
java.lang.String |
enrichedToSz(double dexpected)
Converts the number of genes enriched as a double to a string representation |
void |
init()
Initializes the colors |
void |
mouseClicked(java.awt.event.MouseEvent e)
Responds to mouse clicked events |
void |
mouseEntered(java.awt.event.MouseEvent e)
Empty constructor method |
void |
mouseExited(java.awt.event.MouseEvent e)
Empty constructor method |
void |
mousePressed(java.awt.event.MouseEvent e)
Empty constructor method |
void |
mouseReleased(java.awt.event.MouseEvent e)
Empty constructor method |
void |
paint(java.awt.Graphics g)
Renders the interface by getting the interface option settings and then calling plotgenevalues |
void |
plotgenevalues(java.awt.Graphics2D g2,
double numassigned,
double numexpected,
double pvalue,
double[][] genevalues,
int[][] missing,
java.util.ArrayList[] bestAssignments,
double[] profilevals,
boolean[] sig,
java.util.ArrayList currProfileAssignments)
Responsible for rendering the profile window interface |
| Methods inherited from class javax.swing.JFrame |
|---|
addImpl, createRootPane, frameInit, getAccessibleContext, getContentPane, getDefaultCloseOperation, getGlassPane, getGraphics, getJMenuBar, getLayeredPane, getRootPane, getTransferHandler, isDefaultLookAndFeelDecorated, isRootPaneCheckingEnabled, paramString, processWindowEvent, remove, repaint, setContentPane, setDefaultCloseOperation, setDefaultLookAndFeelDecorated, setGlassPane, setIconImage, setJMenuBar, setLayeredPane, setLayout, setRootPane, setRootPaneCheckingEnabled, setTransferHandler, update |
| Methods inherited from class java.awt.Frame |
|---|
addNotify, 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, getIconImages, getInputContext, getListeners, getLocale, getModalExclusionType, getMostRecentFocusOwner, getOwnedWindows, getOwner, getOwnerlessWindows, getToolkit, getWarningString, getWindowFocusListeners, getWindowListeners, getWindows, getWindowStateListeners, hide, isActive, isAlwaysOnTop, isAlwaysOnTopSupported, isFocusableWindow, isFocusCycleRoot, isFocused, isLocationByPlatform, isShowing, pack, postEvent, processEvent, processWindowFocusEvent, processWindowStateEvent, removeWindowFocusListener, removeWindowListener, removeWindowStateListener, reshape, setAlwaysOnTop, setBounds, setBounds, setCursor, setFocusableWindowState, setFocusCycleRoot, setIconImages, setLocationByPlatform, setLocationRelativeTo, setMinimumSize, setModalExclusionType, setSize, setSize, setVisible, 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, 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, getBaseline, getBaselineResizeBehavior, getBounds, getBounds, getColorModel, getComponentListeners, getComponentOrientation, getCursor, getDropTarget, getFocusListeners, getFocusTraversalKeysEnabled, getFont, getFontMetrics, getForeground, 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, requestFocus, requestFocus, requestFocusInWindow, requestFocusInWindow, resize, resize, setBackground, setComponentOrientation, setDropTarget, setEnabled, setFocusable, setFocusTraversalKeysEnabled, setForeground, setIgnoreRepaint, setLocale, setLocation, setLocation, setMaximumSize, setName, setPreferredSize, 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 java.awt.MenuContainer |
|---|
getFont, postEvent |
| Constructor Detail |
|---|
public ProfileGui(STEM_DataSet theDataSet,
int nprofile,
int[] ranklookup,
java.util.HashSet inames,
int ncompareprofile,
java.lang.String szIntersect,
java.lang.String szGene,
java.lang.String szSpot,
GenePlotPanel thegeneplotpanel,
ChromFrame cf)
| Method Detail |
|---|
public void componentHidden(java.awt.event.ComponentEvent e)
componentHidden in interface java.awt.event.ComponentListenerpublic void componentMoved(java.awt.event.ComponentEvent e)
componentMoved in interface java.awt.event.ComponentListenerpublic void componentResized(java.awt.event.ComponentEvent e)
componentResized in interface java.awt.event.ComponentListenerpublic void componentShown(java.awt.event.ComponentEvent e)
componentShown in interface java.awt.event.ComponentListenerpublic java.lang.String enrichedToSz(double dexpected)
public void init()
public void mousePressed(java.awt.event.MouseEvent e)
mousePressed in interface java.awt.event.MouseListenerpublic void mouseReleased(java.awt.event.MouseEvent e)
mouseReleased in interface java.awt.event.MouseListenerpublic void mouseEntered(java.awt.event.MouseEvent e)
mouseEntered in interface java.awt.event.MouseListenerpublic void mouseExited(java.awt.event.MouseEvent e)
mouseExited in interface java.awt.event.MouseListenerpublic void drawintersectgo(java.awt.Color fillColor)
public void mouseClicked(java.awt.event.MouseEvent e)
mouseClicked in interface java.awt.event.MouseListenerpublic static java.lang.String clusterArrayToString(java.util.ArrayList alcprofiles)
public void plotgenevalues(java.awt.Graphics2D g2,
double numassigned,
double numexpected,
double pvalue,
double[][] genevalues,
int[][] missing,
java.util.ArrayList[] bestAssignments,
double[] profilevals,
boolean[] sig,
java.util.ArrayList currProfileAssignments)
public void paint(java.awt.Graphics g)
paint in class java.awt.Container
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