edu.mit.sketch.chem
Class ChemSketch

java.lang.Object
  java.awt.Component
      java.awt.Container
          javax.swing.JComponent
              javax.swing.JPanel
                  edu.mit.sketch.ui.CESketchPanel
                      edu.mit.sketch.chem.ChemSketch

All Implemented Interfaces:

CInkProcessor, StrokeDataListener, java.awt.image.ImageObserver, java.awt.MenuContainer, java.io.Serializable, java.lang.Runnable, javax.accessibility.Accessible

public class ChemSketch
extends CESketchPanel
implements StrokeDataListener, java.lang.Runnable

to be done: read typeStrings from file general clean up

See Also:

Serialized Form

Nested Class Summary

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

javax.swing.JComponent.AccessibleJComponent

Field Summary

static int	backtrack
static boolean	chemknowledge
static java.lang.String	chempath
static double	connectthreshold
static boolean	demo
boolean	display
static double	doublethreshold
static java.lang.String	labelFilePath
int	mode
static double	polythreshold
java.lang.String[]	strokeLabels
static java.lang.String	trainFile

Fields inherited from class javax.swing.JComponent

TOOL_TIP_TEXT_KEY, 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

ChemSketch()

Method Summary

void	applyLabels()
void	buildGraph()
void	buildStructure()
void	compareResults(java.lang.String testfile, java.lang.String reffile)
void	correctSketch()
boolean	doubleBond(StrokeData sd1, StrokeData sd2)
void	evaluateLabels()
void	extractComponents() Extract individual chemistry components from strokes (e.g.
java.lang.String[]	generateLabels()
void	getStrokeEnds()
void	getStrokes()
void	handleStroke(StrokeData stroke) This method is called by classes that collect StrokeData objects.
void	labelAll()
void	labelAllDirs(java.lang.String path)
void	labelAllFiles(java.lang.String path)
void	labelStrokes(java.lang.String label)
static void	main(java.lang.String[] args)
void	openFile(java.io.File file)
void	paintComponent(java.awt.Graphics g)
void	processComponents()
void	recognitionThread()
void	recognize(boolean incremental)
void	recognizeLabel()
void	refineLabels()
void	run()
boolean	sameLabel(java.lang.String l1, java.lang.String l2)
void	save(java.io.File file)
void	saveCDXML(java.lang.String path, boolean load)
void	saveTestLabels()
void	saveTestLabelsInt()
void	test(boolean incremental)
void	testAll()
void	testAllDirs(java.lang.String path)
void	testAllFiles(java.lang.String path)
void	testOne()
void	train(boolean append)
void	trainAll()
void	trainAllDirs(java.lang.String path)
void	trainAllFiles(java.lang.String path)

Methods inherited from class edu.mit.sketch.ui.CESketchPanel

addStrokeDataListener, click, endStroke, getStrokeDataListeners, isPaintingAsWeGo, isRecognizing, key, recognized, registerSample, removeStrokeDataListener, setIsPaintingAsWeGo, setIsRecognizing, startStroke

Methods inherited from class javax.swing.JPanel

getAccessibleContext, getUI, getUIClassID, setUI, updateUI

Methods inherited from class javax.swing.JComponent

addAncestorListener, addNotify, addVetoableChangeListener, computeVisibleRect, contains, createToolTip, disable, enable, firePropertyChange, firePropertyChange, firePropertyChange, getActionForKeyStroke, getActionMap, getAlignmentX, getAlignmentY, getAncestorListeners, getAutoscrolls, getBorder, getBounds, getClientProperty, 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, paintImmediately, paintImmediately, print, printAll, putClientProperty, registerKeyboardAction, registerKeyboardAction, removeAncestorListener, removeNotify, removeVetoableChangeListener, repaint, repaint, requestDefaultFocus, requestFocus, requestFocus, 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, 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, remove, remove, removeAll, removeContainerListener, setComponentZOrder, setFocusCycleRoot, setFocusTraversalPolicy, setFocusTraversalPolicyProvider, setLayout, transferFocusBackward, transferFocusDownCycle, validate

Methods inherited from class java.awt.Component

action, add, addComponentListener, addFocusListener, addHierarchyBoundsListener, addHierarchyListener, addInputMethodListener, addKeyListener, addMouseListener, addMouseMotionListener, addMouseWheelListener, bounds, checkImage, checkImage, contains, createImage, createImage, createVolatileImage, createVolatileImage, dispatchEvent, enable, enableInputMethods, 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, 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

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

Field Detail

backtrack

public static int backtrack

chemknowledge

public static boolean chemknowledge

strokeLabels

public java.lang.String[] strokeLabels

trainFile

public static java.lang.String trainFile

labelFilePath

public static java.lang.String labelFilePath

polythreshold

public static double polythreshold

connectthreshold

public static double connectthreshold

doublethreshold

public static double doublethreshold

chempath

public static java.lang.String chempath

mode

public int mode

display

public boolean display

demo

public static boolean demo

Constructor Detail

ChemSketch

public ChemSketch()

Method Detail

saveCDXML

public void saveCDXML(java.lang.String path,
                      boolean load)

handleStroke

public void handleStroke(StrokeData stroke)

Description copied from interface: StrokeDataListener

This method is called by classes that collect StrokeData objects.

Specified by:

handleStroke in interface StrokeDataListener

trainAll

public void trainAll()

labelAll

public void labelAll()

testAll

public void testAll()

train

public void train(boolean append)

test

public void test(boolean incremental)

run

public void run()

Specified by:

run in interface java.lang.Runnable

recognitionThread

public void recognitionThread()

recognize

public void recognize(boolean incremental)

recognizeLabel

public void recognizeLabel()

buildStructure

public void buildStructure()

paintComponent

public void paintComponent(java.awt.Graphics g)

Overrides:

paintComponent in class javax.swing.JComponent

getStrokes

public void getStrokes()

getStrokeEnds

public void getStrokeEnds()

labelStrokes

public void labelStrokes(java.lang.String label)

applyLabels

public void applyLabels()

extractComponents

public void extractComponents()

Extract individual chemistry components from strokes (e.g. multi-bond strokes)

processComponents

public void processComponents()

doubleBond

public boolean doubleBond(StrokeData sd1,
                          StrokeData sd2)

buildGraph

public void buildGraph()

correctSketch

public void correctSketch()

openFile

public void openFile(java.io.File file)

save

public void save(java.io.File file)

main

public static void main(java.lang.String[] args)

saveTestLabels

public void saveTestLabels()

saveTestLabelsInt

public void saveTestLabelsInt()

labelAllDirs

public void labelAllDirs(java.lang.String path)

labelAllFiles

public void labelAllFiles(java.lang.String path)

trainAllDirs

public void trainAllDirs(java.lang.String path)

trainAllFiles

public void trainAllFiles(java.lang.String path)

testAllDirs

public void testAllDirs(java.lang.String path)

testAllFiles

public void testAllFiles(java.lang.String path)

testOne

public void testOne()

generateLabels

public java.lang.String[] generateLabels()

refineLabels

public void refineLabels()

sameLabel

public boolean sameLabel(java.lang.String l1,
                         java.lang.String l2)

compareResults

public void compareResults(java.lang.String testfile,
                           java.lang.String reffile)

evaluateLabels

public void evaluateLabels()