edu.sdsc.sirius.viewers.SequenceViewerImpl
Class SequenceScalePanel

java.lang.Object
  java.awt.Component
      java.awt.Container
          javax.swing.JComponent
              javax.swing.JPanel
                  edu.sdsc.sirius.viewers.SequenceViewerImpl.SequenceScalePanel

All Implemented Interfaces:

javax.accessibility.Accessible, java.awt.image.ImageObserver, java.awt.MenuContainer, java.io.Serializable

public class SequenceScalePanel

extends javax.swing.JPanel

This class impements a panel displayed on top of the stack of sequence panels and shows residue numbers. This panel displays residue numbers in response to selecting sequence panel headers.

Author:

Oleksandr V. Buzko

See Also:

edu.sdsc.mbt.viewables.SequenceViewer,

, Serialized Form

Nested Class Summary

Nested classes inherited from class javax.swing.JComponent

javax.swing.JComponent.AccessibleJComponent

Field Summary

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

SequenceScalePanel(SequenceViewer v, int screenWidth)
Construct a SequenceScalePanel object.

Method Summary

java.awt.image.BufferedImage	createPrintableImage(int startResidue, int stopResidue, int imageWidth, int imageHeight) This method creates a BufferedImage of the requested part of the scale that is used for printing.
void	enablePopup() Enables display of sequence names by turning on the corresponding popup menu item.
int	getFontSize() Returns the current font size in points.
java.util.Vector	getSelectedColumns() Returns a list of the columns that are currently selected.
void	resetPanel()
void	resetPopup() Returns the panel popup menu to the defaults.
void	setNameMenu(boolean show)
void	setResidueCount(int r) Sets the value of total residue count in the displayed alignment.
void	setSelectedColumns(java.util.Vector c) Enables selection of the specified columns by repainting them so that the column headers appear pushed.
void	setSelectedSequence(Sequence s, Cell[] selected) Sets selected sequence that is used as the reference to draw residue numbers.
void	setStartResidue(int residue) Sets the residue index from which to begin display.
void	updateParameters() This method is called by SequenceViewer to set the dimenstions of the panel elements dependent on font size.

Methods inherited from class javax.swing.JPanel

getAccessibleContext, getUI, getUIClassID, setUI, updateUI

Methods inherited from class javax.swing.JComponent

addAncestorListener, addNotify, addPropertyChangeListener, addPropertyChangeListener, addVetoableChangeListener, computeVisibleRect, contains, createToolTip, disable, enable, firePropertyChange, firePropertyChange, firePropertyChange, firePropertyChange, firePropertyChange, firePropertyChange, firePropertyChange, firePropertyChange, getActionForKeyStroke, getActionMap, getAlignmentX, getAlignmentY, getAncestorListeners, getAutoscrolls, getBorder, getBounds, getClientProperty, getConditionForKeyStroke, getDebugGraphicsOptions, getDefaultLocale, getGraphics, getHeight, getInputMap, getInputMap, getInputVerifier, getInsets, getInsets, getListeners, getLocation, getMaximumSize, getMinimumSize, getNextFocusableComponent, getPreferredSize, getPropertyChangeListeners, getPropertyChangeListeners, getRegisteredKeyStrokes, getRootPane, getSize, getToolTipLocation, getToolTipText, getToolTipText, getTopLevelAncestor, getTransferHandler, getVerifyInputWhenFocusTarget, getVetoableChangeListeners, getVisibleRect, getWidth, getX, getY, grabFocus, isDoubleBuffered, isLightweightComponent, isManagingFocus, isMaximumSizeSet, isMinimumSizeSet, isOpaque, isOptimizedDrawingEnabled, isPaintingTile, isPreferredSizeSet, isRequestFocusEnabled, isValidateRoot, paint, paintImmediately, paintImmediately, print, printAll, putClientProperty, registerKeyboardAction, registerKeyboardAction, removeAncestorListener, removeNotify, removePropertyChangeListener, removePropertyChangeListener, removeVetoableChangeListener, repaint, repaint, requestDefaultFocus, requestFocus, requestFocus, requestFocusInWindow, resetKeyboardActions, reshape, revalidate, scrollRectToVisible, setActionMap, setAlignmentX, setAlignmentY, setAutoscrolls, setBackground, setBorder, setDebugGraphicsOptions, setDefaultLocale, setDoubleBuffered, setEnabled, setFont, setForeground, 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, applyComponentOrientation, areFocusTraversalKeysSet, countComponents, deliverEvent, doLayout, findComponentAt, findComponentAt, getComponent, getComponentAt, getComponentAt, getComponentCount, getComponents, getContainerListeners, getFocusTraversalKeys, getFocusTraversalPolicy, getLayout, insets, invalidate, isAncestorOf, isFocusCycleRoot, isFocusCycleRoot, isFocusTraversalPolicySet, layout, list, list, locate, minimumSize, paintComponents, preferredSize, printComponents, remove, remove, removeAll, removeContainerListener, setFocusCycleRoot, setFocusTraversalKeys, setFocusTraversalPolicy, 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, getBackground, getBounds, getColorModel, getComponentListeners, getComponentOrientation, getCursor, getDropTarget, getFocusCycleRootAncestor, getFocusListeners, getFocusTraversalKeysEnabled, getFont, getFontMetrics, getForeground, getGraphicsConfiguration, getHierarchyBoundsListeners, getHierarchyListeners, getIgnoreRepaint, getInputContext, getInputMethodListeners, getInputMethodRequests, getKeyListeners, getLocale, getLocation, getLocationOnScreen, getMouseListeners, getMouseMotionListeners, getMouseWheelListeners, getName, getParent, getPeer, getSize, getToolkit, getTreeLock, gotFocus, handleEvent, hasFocus, hide, imageUpdate, inside, isBackgroundSet, isCursorSet, isDisplayable, isEnabled, isFocusable, isFocusOwner, isFocusTraversable, isFontSet, isForegroundSet, isLightweight, 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, 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

Constructor Detail

SequenceScalePanel

public SequenceScalePanel(SequenceViewer v,
                          int screenWidth)

Construct a SequenceScalePanel object.

Method Detail

updateParameters

public void updateParameters()

This method is called by SequenceViewer to set the dimenstions of the panel elements dependent on font size.

resetPopup

public void resetPopup()

Returns the panel popup menu to the defaults.

enablePopup

public void enablePopup()

Enables display of sequence names by turning on the corresponding popup menu item.

setSelectedColumns

public void setSelectedColumns(java.util.Vector c)

Enables selection of the specified columns by repainting them so that the column headers appear pushed.

Parameters:

c - Vector containing the indices of the columns to be selected

getSelectedColumns

public java.util.Vector getSelectedColumns()

Returns a list of the columns that are currently selected.

Returns:

Vector of selected column indices

setStartResidue

public void setStartResidue(int residue)

Sets the residue index from which to begin display.

setResidueCount

public void setResidueCount(int r)

Sets the value of total residue count in the displayed alignment.

Parameters:

r - residue count

See Also:

edu.sdsc.mbt.util.Alignment

getFontSize

public int getFontSize()

Returns the current font size in points.

setSelectedSequence

public void setSelectedSequence(Sequence s,
                                Cell[] selected)

Sets selected sequence that is used as the reference to draw residue numbers.

Parameters:

s - corresponding Entry

createPrintableImage

public java.awt.image.BufferedImage createPrintableImage(int startResidue,
                                                         int stopResidue,
                                                         int imageWidth,
                                                         int imageHeight)

This method creates a BufferedImage of the requested part of the scale that is used for printing.

resetPanel

public void resetPanel()

setNameMenu

public void setNameMenu(boolean show)