public class AlignmentPanel extends javax.swing.JPanel implements AlignmentListener, java.awt.event.MouseListener, java.awt.event.MouseMotionListener, java.awt.event.MouseWheelListener, javax.swing.Scrollable
javax.swing.JPanel.AccessibleJPanel
javax.swing.JComponent.AccessibleJComponent
Modifier and Type | Field and Description |
---|---|
protected Alignment |
alignment |
protected DisplayProperties |
displayProperties |
protected AlignmentFrame |
owner |
listenerList, TOOL_TIP_TEXT_KEY, ui, UNDEFINED_CONDITION, WHEN_ANCESTOR_OF_FOCUSED_COMPONENT, WHEN_FOCUSED, WHEN_IN_FOCUSED_WINDOW
Constructor and Description |
---|
AlignmentPanel(AlignmentFrame owner,
Alignment alignment,
DisplayProperties displayProperties) |
Modifier and Type | Method and Description |
---|---|
void |
alignmentNameChanged(Alignment alignment) |
void |
alignmentSeqActivityChanged(Alignment alignment,
Sequence sequence) |
void |
alignmentSeqDeleted(Alignment alignment,
int i,
Sequence sequence) |
void |
alignmentSeqSwapped(Alignment alignment,
int i,
int j) |
void |
fireActivityBackgroundChanged() |
int |
getInverseRowIndex(int realRow) |
int |
getNumVisibleRows() |
java.awt.Dimension |
getPreferredScrollableViewportSize() |
java.awt.Dimension |
getPreferredSize() |
int |
getRowIndex(int visibleRow)
Determine the actual row given visible row index; When sequences are
hidden, the cursor based row index (visible row) need to be adjusted for
the actual sequence in order to perform any operations on the sequence
|
int |
getScrollableBlockIncrement(java.awt.Rectangle visibleRectangle,
int orientation,
int direction) |
boolean |
getScrollableTracksViewportHeight() |
boolean |
getScrollableTracksViewportWidth() |
int |
getScrollableUnitIncrement(java.awt.Rectangle visibleRectangle,
int orientation,
int direction) |
SequenceComponent |
getSequenceComponent(int index) |
SequenceComponent |
getSequenceComponent(Sequence sequence) |
int |
getSequenceIndex(Sequence sequence) |
boolean |
hasHiddenRows() |
void |
mouseClicked(java.awt.event.MouseEvent arg0) |
void |
mouseDragged(java.awt.event.MouseEvent arg0) |
void |
mouseEntered(java.awt.event.MouseEvent arg0) |
void |
mouseExited(java.awt.event.MouseEvent arg0) |
void |
mouseMoved(java.awt.event.MouseEvent arg0) |
void |
mousePressed(java.awt.event.MouseEvent e) |
void |
mouseReleased(java.awt.event.MouseEvent arg0) |
void |
mouseWheelMoved(java.awt.event.MouseWheelEvent arg0) |
void |
setAllSequenceCollapsed(boolean isHidden,
boolean repaint) |
void |
setSequenceCollapsed(int idx,
boolean isHidden,
boolean repaint) |
getAccessibleContext, getUI, getUIClassID, paramString, setUI, updateUI
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, 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, paint, paintBorder, paintChildren, paintComponent, 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, setFont, setForeground, setInheritsPopupMenu, setInputMap, setInputVerifier, setMaximumSize, setMinimumSize, setNextFocusableComponent, setOpaque, setPreferredSize, setRequestFocusEnabled, setToolTipText, setTransferHandler, setUI, setVerifyInputWhenFocusTarget, setVisible, unregisterKeyboardAction, update
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
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, getPeer, 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, resize, resize, setBounds, setBounds, setComponentOrientation, setCursor, setDropTarget, setFocusable, setFocusTraversalKeysEnabled, setIgnoreRepaint, setLocale, setLocation, setLocation, setName, setSize, setSize, show, show, size, toString, transferFocus, transferFocusBackward, transferFocusUpCycle
protected Alignment alignment
protected DisplayProperties displayProperties
protected AlignmentFrame owner
public AlignmentPanel(AlignmentFrame owner, Alignment alignment, DisplayProperties displayProperties)
public boolean hasHiddenRows()
public int getRowIndex(int visibleRow)
visibleRow
- public int getNumVisibleRows()
public int getInverseRowIndex(int realRow)
public int getSequenceIndex(Sequence sequence)
public SequenceComponent getSequenceComponent(int index)
public SequenceComponent getSequenceComponent(Sequence sequence)
public void setAllSequenceCollapsed(boolean isHidden, boolean repaint)
public void setSequenceCollapsed(int idx, boolean isHidden, boolean repaint)
public java.awt.Dimension getPreferredSize()
getPreferredSize
in class javax.swing.JComponent
public void alignmentSeqDeleted(Alignment alignment, int i, Sequence sequence)
alignmentSeqDeleted
in interface AlignmentListener
public void alignmentSeqSwapped(Alignment alignment, int i, int j)
alignmentSeqSwapped
in interface AlignmentListener
public void alignmentNameChanged(Alignment alignment)
alignmentNameChanged
in interface AlignmentListener
public void alignmentSeqActivityChanged(Alignment alignment, Sequence sequence)
alignmentSeqActivityChanged
in interface AlignmentListener
public void fireActivityBackgroundChanged()
public void mouseDragged(java.awt.event.MouseEvent arg0)
mouseDragged
in interface java.awt.event.MouseMotionListener
public void mouseMoved(java.awt.event.MouseEvent arg0)
mouseMoved
in interface java.awt.event.MouseMotionListener
public void mouseClicked(java.awt.event.MouseEvent arg0)
mouseClicked
in interface java.awt.event.MouseListener
public void mouseEntered(java.awt.event.MouseEvent arg0)
mouseEntered
in interface java.awt.event.MouseListener
public void mouseExited(java.awt.event.MouseEvent arg0)
mouseExited
in interface java.awt.event.MouseListener
public void mousePressed(java.awt.event.MouseEvent e)
mousePressed
in interface java.awt.event.MouseListener
public void mouseReleased(java.awt.event.MouseEvent arg0)
mouseReleased
in interface java.awt.event.MouseListener
public java.awt.Dimension getPreferredScrollableViewportSize()
getPreferredScrollableViewportSize
in interface javax.swing.Scrollable
public int getScrollableBlockIncrement(java.awt.Rectangle visibleRectangle, int orientation, int direction)
getScrollableBlockIncrement
in interface javax.swing.Scrollable
public boolean getScrollableTracksViewportHeight()
getScrollableTracksViewportHeight
in interface javax.swing.Scrollable
public boolean getScrollableTracksViewportWidth()
getScrollableTracksViewportWidth
in interface javax.swing.Scrollable
public int getScrollableUnitIncrement(java.awt.Rectangle visibleRectangle, int orientation, int direction)
getScrollableUnitIncrement
in interface javax.swing.Scrollable
public void mouseWheelMoved(java.awt.event.MouseWheelEvent arg0)
mouseWheelMoved
in interface java.awt.event.MouseWheelListener