org.biojava.bio.gui.sequence
Class BumpedRenderer

java.lang.Object
  extended by org.biojava.utils.AbstractChangeable
      extended by org.biojava.bio.gui.sequence.SequenceRendererWrapper
          extended by org.biojava.bio.gui.sequence.BumpedRenderer
All Implemented Interfaces:
java.io.Serializable, SequenceRenderer, Changeable

public class BumpedRenderer
extends SequenceRendererWrapper

Author:
Matthew Pocock
See Also:
Serialized Form

Nested Class Summary
 
Nested classes/interfaces inherited from interface org.biojava.bio.gui.sequence.SequenceRenderer
SequenceRenderer.RendererForwarder
 
Field Summary
 
Fields inherited from class org.biojava.bio.gui.sequence.SequenceRendererWrapper
RENDERER
 
Constructor Summary
BumpedRenderer()
           
BumpedRenderer(SequenceRenderer renderer)
           
BumpedRenderer(SequenceRenderer renderer, int leading, int trailing)
           
 
Method Summary
protected  java.util.List doLayer(SequenceRenderContext src, FeatureFilter filt)
           
protected  ChangeSupport getChangeSupport(ChangeType ct)
          Called to retrieve the ChangeSupport for this object.
 double getDepth(SequenceRenderContext src)
          Retrieve the depth of this renderer when rendering src.
 int getLeadingPixles()
           
 double getMinimumLeader(SequenceRenderContext src)
          Retrieve the minimum leading distance for this renderer when rendering src.
 double getMinimumTrailer(SequenceRenderContext src)
          Retrieve the minimum trailing distance for this renderer when rendering src.
 int getTrailingPixles()
           
protected  boolean hasListeners()
          Discover if we have any listeners registered.
protected  java.util.List layer(SequenceRenderContext src)
           
 void paint(java.awt.Graphics2D g, SequenceRenderContext src)
          Render a portion (possibly all) of the information for src to g, displaying all of the data that would fall within seqBox.
 SequenceViewerEvent processMouseEvent(SequenceRenderContext src, java.awt.event.MouseEvent me, java.util.List path)
          Produce a SequenceViewerEvent in response to a mouse gesture.
 void setLeadingPixles(int leading)
           
 void setTrailingPixles(int trailing)
           
 
Methods inherited from class org.biojava.bio.gui.sequence.SequenceRendererWrapper
getRenderer, setRenderer
 
Methods inherited from class org.biojava.utils.AbstractChangeable
addChangeListener, addChangeListener, generateChangeSupport, hasListeners, isUnchanging, removeChangeListener, removeChangeListener
 
Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait
 

Constructor Detail

BumpedRenderer

public BumpedRenderer()

BumpedRenderer

public BumpedRenderer(SequenceRenderer renderer)

BumpedRenderer

public BumpedRenderer(SequenceRenderer renderer,
                      int leading,
                      int trailing)
Method Detail

getLeadingPixles

public int getLeadingPixles()

setLeadingPixles

public void setLeadingPixles(int leading)

getTrailingPixles

public int getTrailingPixles()

setTrailingPixles

public void setTrailingPixles(int trailing)

hasListeners

protected boolean hasListeners()
Description copied from class: AbstractChangeable
Discover if we have any listeners registered.

Overrides:
hasListeners in class AbstractChangeable
Returns:
true if there is at least one listener

getChangeSupport

protected ChangeSupport getChangeSupport(ChangeType ct)
Description copied from class: AbstractChangeable
Called to retrieve the ChangeSupport for this object.

Your implementation of this method should have the following structure:

 ChangeSupport cs = super.getChangeSupport(ct);

 if(someForwarder == null && ct.isMatching(SomeInterface.SomeChangeType)) {
   someForwarder = new ChangeForwarder(...

   this.stateVariable.addChangeListener(someForwarder, VariableInterface.AChange);
 }

 return cs;
 
It is usual for the forwarding listeners (someForwarder in this example) to be transient and lazily instantiated. Be sure to register & unregister the forwarder in the code that does the ChangeEvent handling in setter methods.

Overrides:
getChangeSupport in class SequenceRendererWrapper

getDepth

public double getDepth(SequenceRenderContext src)
Description copied from interface: SequenceRenderer
Retrieve the depth of this renderer when rendering src.

The depth may vary between sequence panels - for example based upon sequence length. Each line of information in the SequenceRendererContext only renders a region of the sequence. The depth for one complete line may be different from that for another due to the sequence having more or less information in that region to show. For example, a feature renderer implementation may chose to collapse down to a depth of zero pixels if there are no features to render within a region.

Specified by:
getDepth in interface SequenceRenderer
Overrides:
getDepth in class SequenceRendererWrapper
Parameters:
src - the SequenceRenderContext to return info for
Returns:
the depth of the renderer for that sequence panel

getMinimumLeader

public double getMinimumLeader(SequenceRenderContext src)
Description copied from interface: SequenceRenderer
Retrieve the minimum leading distance for this renderer when rendering src.

The leading distance may vary between sequence panels - for example based upon sequence length.

Specified by:
getMinimumLeader in interface SequenceRenderer
Overrides:
getMinimumLeader in class SequenceRendererWrapper
Parameters:
src - the SequenceRenderContext to return info for
Returns:
the leading distance of the renderer for that sequence panel

getMinimumTrailer

public double getMinimumTrailer(SequenceRenderContext src)
Description copied from interface: SequenceRenderer
Retrieve the minimum trailing distance for this renderer when rendering src.

The trailing distance may vary between sequence panels - for example based upon sequence length.

Specified by:
getMinimumTrailer in interface SequenceRenderer
Overrides:
getMinimumTrailer in class SequenceRendererWrapper
Parameters:
src - the SequenceRenderContext to return info for
Returns:
the trailing distance of the renderer for that sequence panel

paint

public void paint(java.awt.Graphics2D g,
                  SequenceRenderContext src)
Description copied from interface: SequenceRenderer
Render a portion (possibly all) of the information for src to g, displaying all of the data that would fall within seqBox.

Specified by:
paint in interface SequenceRenderer
Overrides:
paint in class SequenceRendererWrapper
Parameters:
g - the Graphics2D to render to
src - the SequenceRenderContext that encapsulates the information to render

processMouseEvent

public SequenceViewerEvent processMouseEvent(SequenceRenderContext src,
                                             java.awt.event.MouseEvent me,
                                             java.util.List path)
Description copied from interface: SequenceRenderer
Produce a SequenceViewerEvent in response to a mouse gesture.

A SequenceRenderer that performs any form of coordinate remapping should ensure that it appropriately transforms the mouse event. However, in the SequenceViewerEvent returned, the MouseEvent should be in untransformed coordinates.

The SequenceRenderer implementation should append itself to the path list before constructing the SequenceViewerEvent.

Specified by:
processMouseEvent in interface SequenceRenderer
Overrides:
processMouseEvent in class SequenceRendererWrapper
Parameters:
src - the SequenceRenderContext currently in scope
me - a MouseEvent that caused this request
path - the List of SequenceRenderer instances passed through so far
Returns:
a SequenceViewerEvent encapsulating the mouse gesture

layer

protected java.util.List layer(SequenceRenderContext src)

doLayer

protected java.util.List doLayer(SequenceRenderContext src,
                                 FeatureFilter filt)