org.biojava.bio.gui.sequence.SequencePanelWrapper

All Implemented Interfaces:: ImageObserver, MenuContainer, Serializable, Accessible

public class SequencePanelWrapper extends JPanel

Handles multiple SequencePanels and Ranges so that a Sequence can be wrapped over more than one line on screen. This is particularly useful for viewing Protein sequences that would be viewed at a single residue resolution. The interface is very similar to that of the SequencePanels that it wraps

Since:

1.5

Author:

Mark Southern

See Also:

Nested Class Summary

Nested classes/interfaces inherited from class javax.swing.JPanel
JPanel.AccessibleJPanel

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

Nested classes/interfaces inherited from class java.awt.Container
Container.AccessibleAWTContainer

Nested classes/interfaces inherited from class java.awt.Component
Component.AccessibleAWTComponent, Component.BaselineResizeBehavior, Component.BltBufferStrategy, Component.FlipBufferStrategy
Field Summary

Fields

Modifier and Type

Field

Description

protected SequencePanel[]

seqPanels

Fields inherited from class javax.swing.JComponent
listenerList, TOOL_TIP_TEXT_KEY, ui, UNDEFINED_CONDITION, WHEN_ANCESTOR_OF_FOCUSED_COMPONENT, WHEN_FOCUSED, WHEN_IN_FOCUSED_WINDOW

Fields inherited from class java.awt.Component
accessibleContext, 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

Constructors

Constructor

Description

SequencePanelWrapper()

Creates a new instance of WrappedSequencePanel
Method Summary

Modifier and Type

Method

Description

void

addSequenceViewerListener(SequenceViewerListener l)

void

addSequenceViewerMotionListener(SequenceViewerMotionListener l)

int

getDirection()

RangeLocation

getRange()

SequenceRenderer

getRenderer()

RenderingHints

getRenderingHints()

double

getScale()

Sequence

getSequence()

TrackLayout

getTrackLayout()

int

getWrap()

protected void

initComponents()

protected boolean

isActive()

void

paint(Graphics g)

void

paintComponent(Graphics g)

protected void

refreshSequencePanels()

void

removeSequenceViewerListener(SequenceViewerListener l)

void

removeSequenceViewerMotionListener(SequenceViewerMotionListener l)

void

resizeAndValidate()

void

setDirection(int direction)

void

setFont(Font f)

void

setRange(RangeLocation loc)

void

setRenderer(SequenceRenderer renderer)

void

setRenderingHints(RenderingHints hints)

void

setScale(double scale)

void

setSequence(Sequence seq)

void

setTrackLayout(TrackLayout tl)

void

setWrap(int w)

Methods inherited from class javax.swing.JPanel
getAccessibleContext, getUI, getUIClassID, paramString, setUI, updateUI

Methods inherited from class javax.swing.JComponent
addAncestorListener, addNotify, addVetoableChangeListener, computeVisibleRect, contains, createToolTip, disable, enable, firePropertyChange, firePropertyChange, firePropertyChange, fireVetoableChange, getActionForKeyStroke, getActionMap, getAlignmentX, getAlignmentY, getAncestorListeners, getAutoscrolls, getBaseline, getBaselineResizeBehavior, getBorder, getBounds, getClientProperty, getComponentGraphics, 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, hide, isDoubleBuffered, isLightweightComponent, isManagingFocus, isOpaque, isOptimizedDrawingEnabled, isPaintingForPrint, isPaintingOrigin, isPaintingTile, isRequestFocusEnabled, isValidateRoot, paintBorder, paintChildren, paintImmediately, paintImmediately, print, printAll, printBorder, printChildren, printComponent, processComponentKeyEvent, processKeyBinding, processKeyEvent, processMouseEvent, processMouseMotionEvent, putClientProperty, registerKeyboardAction, registerKeyboardAction, removeAncestorListener, removeNotify, removeVetoableChangeListener, repaint, repaint, requestDefaultFocus, requestFocus, requestFocus, requestFocusInWindow, requestFocusInWindow, resetKeyboardActions, reshape, revalidate, scrollRectToVisible, setActionMap, setAlignmentX, setAlignmentY, setAutoscrolls, setBackground, setBorder, setComponentPopupMenu, setDebugGraphicsOptions, setDefaultLocale, setDoubleBuffered, setEnabled, setFocusTraversalKeys, setForeground, setInheritsPopupMenu, setInputMap, setInputVerifier, setMaximumSize, setMinimumSize, setNextFocusableComponent, setOpaque, setPreferredSize, setRequestFocusEnabled, setToolTipText, setTransferHandler, setUI, setVerifyInputWhenFocusTarget, setVisible, unregisterKeyboardAction, update

Methods inherited from class java.awt.Container
add, add, add, add, add, addContainerListener, addImpl, 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, processContainerEvent, processEvent, remove, remove, removeAll, removeContainerListener, setComponentZOrder, setFocusCycleRoot, setFocusTraversalPolicy, setFocusTraversalPolicyProvider, setLayout, 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, createImage, createImage, createVolatileImage, createVolatileImage, disableEvents, dispatchEvent, enable, enableEvents, enableInputMethods, firePropertyChange, 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, getPropertyChangeListeners, getPropertyChangeListeners, getSize, getToolkit, getTreeLock, gotFocus, handleEvent, hasFocus, 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, processComponentEvent, processFocusEvent, processHierarchyBoundsEvent, processHierarchyEvent, processInputMethodEvent, processMouseWheelEvent, remove, removeComponentListener, removeFocusListener, removeHierarchyBoundsListener, removeHierarchyListener, removeInputMethodListener, removeKeyListener, removeMouseListener, removeMouseMotionListener, removeMouseWheelListener, removePropertyChangeListener, removePropertyChangeListener, repaint, repaint, repaint, requestFocus, requestFocus, requestFocusInWindow, resize, resize, setBounds, setBounds, setComponentOrientation, setCursor, setDropTarget, setFocusable, setFocusTraversalKeysEnabled, setIgnoreRepaint, setLocale, setLocation, setLocation, setMixingCutoutShape, setName, setSize, setSize, show, show, size, toString, transferFocus, transferFocusBackward, transferFocusUpCycle

Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, wait, wait, wait

Field Details
- seqPanels
  
  protected SequencePanel[] seqPanels
Constructor Details
- SequencePanelWrapper
  
  public SequencePanelWrapper()
  
  Creates a new instance of WrappedSequencePanel
Method Details
- initComponents
  
  protected void initComponents()
- setTrackLayout
  
  public void setTrackLayout(TrackLayout tl)
- getTrackLayout
  
  public TrackLayout getTrackLayout()
- isActive
  
  protected boolean isActive()
- setScale
  
  public void setScale(double scale)
- getScale
  
  public double getScale()
- setDirection
  
  public void setDirection(int direction)
- getDirection
  
  public int getDirection()
- setWrap
  
  public void setWrap(int w)
- getWrap
  
  public int getWrap()
- setRenderingHints
  
  public void setRenderingHints(RenderingHints hints)
- getRenderingHints
  
  public RenderingHints getRenderingHints()
- setRenderer
  
  public void setRenderer(SequenceRenderer renderer)
- getRenderer
  
  public SequenceRenderer getRenderer()
- setSequence
  
  public void setSequence(Sequence seq)
- getSequence
  
  public Sequence getSequence()
- setRange
  
  public void setRange(RangeLocation loc)
- getRange
  
  public RangeLocation getRange()
- resizeAndValidate
  
  public void resizeAndValidate()
- refreshSequencePanels
  
  protected void refreshSequencePanels()
- addSequenceViewerListener
  
  public void addSequenceViewerListener(SequenceViewerListener l)
- removeSequenceViewerListener
  
  public void removeSequenceViewerListener(SequenceViewerListener l)
- addSequenceViewerMotionListener
  
  public void addSequenceViewerMotionListener(SequenceViewerMotionListener l)
- removeSequenceViewerMotionListener
  
  public void removeSequenceViewerMotionListener(SequenceViewerMotionListener l)
- setFont
  
  public void setFont(Font f)
  
  Overrides:
  
  setFont in class JComponent
- paint
  
  public void paint(Graphics g)
  
  Overrides:
  
  paint in class JComponent
- paintComponent
  
  public void paintComponent(Graphics g)
  
  Overrides:
  
  paintComponent in class JComponent

Class SequencePanelWrapper

Nested Class Summary

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

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

Nested classes/interfaces inherited from class java.awt.Container

Nested classes/interfaces inherited from class java.awt.Component

Field Summary

Fields inherited from class javax.swing.JComponent

Fields inherited from class java.awt.Component

Fields inherited from interface java.awt.image.ImageObserver

Constructor Summary

Method Summary

Methods inherited from class javax.swing.JPanel

Methods inherited from class javax.swing.JComponent

Methods inherited from class java.awt.Container

Methods inherited from class java.awt.Component

Methods inherited from class java.lang.Object

Field Details

seqPanels

Constructor Details

SequencePanelWrapper

Method Details

initComponents

setTrackLayout

getTrackLayout

isActive

setScale

getScale

setDirection

getDirection

setWrap

getWrap

setRenderingHints

getRenderingHints

setRenderer

getRenderer

setSequence

getSequence

setRange

getRange

resizeAndValidate

refreshSequencePanels

addSequenceViewerListener

removeSequenceViewerListener

addSequenceViewerMotionListener

removeSequenceViewerMotionListener

setFont

paint

paintComponent