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java.lang.Object java.awt.Component java.awt.Container java.awt.Window java.awt.Frame org.strbio.mol.lib.pred2ary.Pred2aryAppletFrame
public class Pred2aryAppletFrame
Predict secondary structure/class, using profiles. This is a java applet version. All 1.1 event handling has been reverted to 1.0, to please old versions of Netscape.
Version Version 1.06AP, 6/9/99 - moved to org.strbio.mol.lib.pred2ary, uses more functionality from generic classes Version 1.052AP, 12/10/98 - fixed bug with nameless MSF files Version 1.051AP, 10/26/98 - can load lower case FASTA and MSF files Version 1.05AP, 9/4/98 - fixed bug triggered by choosing sequence and repredicting Version 1.04AP, 8/31/98 - fixed loading bug, includes key. Version 1.03AP, 8/26/98 - more help buttons Version 1.02AP, 8/20/98 - prevents users from clicking Predict twice. Version 1.01AP, 8/18/98 - cosmetic changes Version 1.0AP, 8/5/98 - adapted from Pred2ary 1.12NS (8/4/98)
Nested Class Summary | |
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class |
Pred2aryAppletFrame.AboutDialog
This gets displayed if user wants to know about the program. |
class |
Pred2aryAppletFrame.AboutMessage
|
class |
Pred2aryAppletFrame.LoadWindow
|
class |
Pred2aryAppletFrame.ProgressDialog
|
class |
Pred2aryAppletFrame.ProteinPane
|
class |
Pred2aryAppletFrame.SaveWindow
|
Nested classes/interfaces inherited from class java.awt.Frame |
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java.awt.Frame.AccessibleAWTFrame |
Nested classes/interfaces inherited from class java.awt.Window |
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java.awt.Window.AccessibleAWTWindow |
Nested classes/interfaces inherited from class java.awt.Container |
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java.awt.Container.AccessibleAWTContainer |
Nested classes/interfaces inherited from class java.awt.Component |
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java.awt.Component.AccessibleAWTComponent, java.awt.Component.BltBufferStrategy, java.awt.Component.FlipBufferStrategy |
Field Summary | |
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Pred2aryAppletFrame.AboutDialog |
aboutDialog
|
Pred2aryApplet |
applet
|
java.awt.Button |
chooseSequenceB
|
AppletJury |
currentJury
|
int |
fontSize
|
Pred2aryAppletFrame |
frame
|
java.awt.Button |
loadProteinsB
|
java.awt.MenuItem |
loadProteinsMI
|
Pred2aryAppletFrame.LoadWindow |
loadWindow
|
OldBufferedPrintfTextArea |
logText
|
java.awt.Label |
mainLabel
|
java.awt.Label |
networkLabel
|
char[] |
numBuffer
|
PredictionSet |
p
|
ProfileDisplayArea |
pda
|
java.awt.Button |
predictProteinsB
|
Pred2aryAppletFrame.ProgressDialog |
progressDialog
|
Pred2aryAppletFrame.ProteinPane |
proteinPane
|
java.awt.Button |
saveProteinsB
|
java.awt.MenuItem |
saveProteinsMI
|
Pred2aryAppletFrame.SaveWindow |
saveWindow
|
JMCScrollPane |
scrollPanel
|
java.awt.Panel |
tabbedPane
|
static java.lang.String |
VERSION
|
Fields inherited from class java.awt.Frame |
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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 |
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BOTTOM_ALIGNMENT, CENTER_ALIGNMENT, LEFT_ALIGNMENT, RIGHT_ALIGNMENT, TOP_ALIGNMENT |
Fields inherited from interface java.awt.image.ImageObserver |
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ABORT, ALLBITS, ERROR, FRAMEBITS, HEIGHT, PROPERTIES, SOMEBITS, WIDTH |
Constructor Summary | |
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Pred2aryAppletFrame(Pred2aryApplet ap)
This handles the interactive, GUI version of the program. |
Method Summary | |
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void |
chooseSequence()
|
void |
clearLog()
|
void |
disableEverything()
|
void |
enableWithoutProteins()
|
void |
enableWithProteins()
|
boolean |
handleEvent(java.awt.Event e)
|
void |
loadProteins()
open up a new load window. |
static void |
main(java.lang.String[] argv)
|
void |
predictProteins()
|
void |
saveProteins()
open up a new save window and save in ea format to it. |
void |
setFontSize(int size)
|
void |
setLabel(java.lang.String s)
give user a short message. |
java.awt.Menu |
setupFontSizeMenu()
|
java.awt.MenuItem |
setupFontSizeMenuItem(int size,
java.awt.Menu menu)
|
void |
showHelp(java.lang.String helpLoc)
|
void |
showProteins()
|
Methods inherited from class java.awt.Frame |
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addNotify, finalize, getAccessibleContext, getCursorType, getExtendedState, getFrames, getIconImage, getMaximizedBounds, getMenuBar, getState, getTitle, isResizable, isUndecorated, paramString, remove, removeNotify, setCursor, setExtendedState, setIconImage, setMaximizedBounds, setMenuBar, setResizable, setState, setTitle, setUndecorated |
Methods inherited from class java.awt.Window |
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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, processWindowEvent, processWindowFocusEvent, processWindowStateEvent, removeWindowFocusListener, removeWindowListener, removeWindowStateListener, setAlwaysOnTop, setBounds, setCursor, setFocusableWindowState, setFocusCycleRoot, setLocationByPlatform, setLocationRelativeTo, show, toBack, toFront |
Methods inherited from class java.awt.Container |
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add, add, add, add, add, addContainerListener, addImpl, 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, remove, removeAll, removeContainerListener, setComponentZOrder, setFocusTraversalKeys, setFocusTraversalPolicy, setFocusTraversalPolicyProvider, setFont, setLayout, transferFocusBackward, transferFocusDownCycle, update, validate, validateTree |
Methods inherited from class java.awt.Component |
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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, 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, setVisible, show, size, toString, transferFocus, transferFocusUpCycle |
Methods inherited from class java.lang.Object |
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clone, equals, getClass, hashCode, notify, notifyAll, wait, wait, wait |
Methods inherited from interface java.awt.MenuContainer |
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getFont, postEvent |
Field Detail |
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public static final java.lang.String VERSION
public Pred2aryApplet applet
public Pred2aryAppletFrame frame
public Pred2aryAppletFrame.AboutDialog aboutDialog
public Pred2aryAppletFrame.ProgressDialog progressDialog
public Pred2aryAppletFrame.SaveWindow saveWindow
public Pred2aryAppletFrame.LoadWindow loadWindow
public OldBufferedPrintfTextArea logText
public Pred2aryAppletFrame.ProteinPane proteinPane
public ProfileDisplayArea pda
public JMCScrollPane scrollPanel
public java.awt.Panel tabbedPane
public java.awt.Label mainLabel
public PredictionSet p
public AppletJury currentJury
public int fontSize
public java.awt.Label networkLabel
public java.awt.Button chooseSequenceB
public java.awt.Button loadProteinsB
public java.awt.MenuItem loadProteinsMI
public java.awt.Button saveProteinsB
public java.awt.Button predictProteinsB
public java.awt.MenuItem saveProteinsMI
public final char[] numBuffer
Constructor Detail |
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public Pred2aryAppletFrame(Pred2aryApplet ap)
Method Detail |
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public void showHelp(java.lang.String helpLoc)
public void disableEverything()
public void enableWithProteins()
public void enableWithoutProteins()
public void setLabel(java.lang.String s)
public void loadProteins()
public void saveProteins()
public void clearLog()
public void predictProteins()
public void chooseSequence()
public void showProteins()
public void setFontSize(int size)
public java.awt.MenuItem setupFontSizeMenuItem(int size, java.awt.Menu menu)
public java.awt.Menu setupFontSizeMenu()
public boolean handleEvent(java.awt.Event e)
handleEvent
in class java.awt.Component
public static final void main(java.lang.String[] argv)
|
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