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java.lang.Objectjava.awt.Component
java.awt.Container
javax.swing.JComponent
view.SequencePainter
public class SequencePainter
This class does all the sequence painting, implements Observable, as the structure frame listens to the mouse events on the alignment panel.
Nested Class Summary |
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Nested classes/interfaces inherited from class javax.swing.JComponent |
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javax.swing.JComponent.AccessibleJComponent |
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.BaselineResizeBehavior, java.awt.Component.BltBufferStrategy, java.awt.Component.FlipBufferStrategy |
Field Summary |
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Fields inherited from class javax.swing.JComponent |
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accessibleContext, 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 |
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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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SequencePainter(AlignViewProps viewProps,
AlignPanel alignPanel,
S3DetObject s3detobj)
Constructor of the SeqRenderer. |
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SequencePainter(AlignViewProps viewProps,
S3DetObject s3detobj)
Constructor of the SequencePainter without observers. |
Method Summary | |
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void |
closeRegisteredWindows(java.lang.String type)
Close all registered windows |
void |
colorColumn(java.awt.Color currentColor,
int xPos,
int yPos)
This method colors the columns |
void |
deregister(Observer obs)
Deregisters the observer. |
void |
drawBackground(int start,
int end,
int yPos)
This methods draws the background. |
void |
drawHorizontal(SequenceImpl seq,
int xStart,
int xEnd,
int yPos,
java.awt.Color linecolor)
This methods draws an horizontal line (used for the group boxes). |
void |
drawPanel(java.awt.Graphics g1,
int startRes,
int endRes,
int startSeq,
int endSeq,
int offset)
This methods draws the panel. |
void |
drawSelectionSeq(SequenceImpl seq,
int start,
int end,
int yPos)
This methods actually draws the sequence. |
void |
drawSeq(SequenceImpl seq,
int start,
int end,
int yPos)
This methods actually draws the sequence. |
void |
drawVertical(SequenceImpl seq,
int xPos,
int yStart,
int yEnd,
java.awt.Color linecolor)
This methods draws an vertical line (used for the group boxes). |
int |
getAAPosition(java.awt.event.MouseEvent evt)
Returns the position of a amino acid for a mouse event. |
AlignPanel |
getAlignPanel()
Returns the alignment panel. |
int |
getCurrentPosition()
Returns the current position. |
SequenceImpl |
getSelectedSequence()
Returns the selected sequence. |
int |
getSequence(java.awt.event.MouseEvent evt)
Returns the sequence for a mouse event. |
int |
getSumScrollX()
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AlignViewProps |
getViewProps()
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void |
init(java.awt.Graphics g)
Initializes the graphics object. |
void |
notifyObservers()
Notify the observer. |
void |
notifyOnMouseClick(java.awt.event.MouseEvent ev)
Notifies the observers on a mouse click. |
void |
notifyUpperPanels()
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protected void |
paintComponent(java.awt.Graphics g)
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void |
register(Observer obs)
Registers the observer. |
void |
scrollPainting(int xValue,
int yValue)
This method does the scroll painting. |
void |
setExport(boolean isExport)
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void |
setJmolPanel(view.Structure3DFrame.JmolPanel jmolPanel)
Sets the jMolPanel and registers the seqPainter. |
void |
setSumScrollX(int sumScrollX)
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void |
setViewProps(AlignViewProps viewProps)
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void |
toggleResidue(java.awt.event.MouseEvent ev)
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void |
unsetJmolPanel()
Unsets the seqPainter. |
void |
update(Observable object)
Updates the data from the observable object. |
Methods inherited from class javax.swing.JComponent |
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addAncestorListener, addNotify, addVetoableChangeListener, computeVisibleRect, contains, createToolTip, disable, enable, firePropertyChange, firePropertyChange, firePropertyChange, fireVetoableChange, getAccessibleContext, 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, getUIClassID, getVerifyInputWhenFocusTarget, getVetoableChangeListeners, getVisibleRect, getWidth, getX, getY, grabFocus, isDoubleBuffered, isLightweightComponent, isManagingFocus, isOpaque, isOptimizedDrawingEnabled, isPaintingForPrint, isPaintingTile, isRequestFocusEnabled, isValidateRoot, paint, paintBorder, paintChildren, paintImmediately, paintImmediately, paramString, 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, updateUI |
Methods inherited from class java.awt.Container |
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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 |
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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, 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, 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 |
Methods inherited from class java.lang.Object |
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clone, equals, finalize, getClass, hashCode, notify, notifyAll, wait, wait, wait |
Constructor Detail |
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public SequencePainter(AlignViewProps viewProps, AlignPanel alignPanel, S3DetObject s3detobj)
viewProps
- alignPanel
- s3detobj
- public SequencePainter(AlignViewProps viewProps, S3DetObject s3detobj)
viewProps
- alignPanel
- s3detobj
- Method Detail |
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protected void paintComponent(java.awt.Graphics g)
paintComponent
in class javax.swing.JComponent
public void drawPanel(java.awt.Graphics g1, int startRes, int endRes, int startSeq, int endSeq, int offset)
g1
- startRes
- endRes
- startSeq
- endSeq
- offset
- public void init(java.awt.Graphics g)
g
- public void colorColumn(java.awt.Color currentColor, int xPos, int yPos)
currentColor
- xPos
- yPos
- public void drawBackground(int start, int end, int yPos)
start
- end
- yPos
- public void drawHorizontal(SequenceImpl seq, int xStart, int xEnd, int yPos, java.awt.Color linecolor)
xStart
- xEnd
- yPos
- public void drawVertical(SequenceImpl seq, int xPos, int yStart, int yEnd, java.awt.Color linecolor)
seq
- xPos
- yStart
- yEnd
- linecolor
- public void drawSeq(SequenceImpl seq, int start, int end, int yPos)
seq
- start
- end
- yPos
- public void drawSelectionSeq(SequenceImpl seq, int start, int end, int yPos)
seq
- start
- end
- yPos
- public void scrollPainting(int xValue, int yValue)
xValue
- yValue
- public void notifyOnMouseClick(java.awt.event.MouseEvent ev)
public void toggleResidue(java.awt.event.MouseEvent ev)
public int getAAPosition(java.awt.event.MouseEvent evt)
evt
-
public int getSequence(java.awt.event.MouseEvent evt)
evt
-
public AlignPanel getAlignPanel()
public void notifyObservers()
notifyObservers
in interface Observable
public void notifyUpperPanels()
public void register(Observer obs)
register
in interface Observable
public void deregister(Observer obs)
deregister
in interface Observable
public int getCurrentPosition()
public SequenceImpl getSelectedSequence()
public void update(Observable object)
update
in interface Observer
public void setJmolPanel(view.Structure3DFrame.JmolPanel jmolPanel)
jmolPanel
- public void unsetJmolPanel()
public void setExport(boolean isExport)
public void setSumScrollX(int sumScrollX)
public int getSumScrollX()
public void closeRegisteredWindows(java.lang.String type)
public AlignViewProps getViewProps()
public void setViewProps(AlignViewProps viewProps)
viewProps
- the viewProps to set
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