apollo.gui.drawable
Class DrawableGeneSeqFeature

java.lang.Object
  apollo.gui.drawable.DrawableSeqFeature
      apollo.gui.drawable.DrawableGeneSeqFeature

All Implemented Interfaces:

Drawable, SelectableI

Direct Known Subclasses:

DrawablePhaseHighlightGeneSeqFeature

public class DrawableGeneSeqFeature
extends DrawableSeqFeature
implements Drawable, SelectableI

This is currently used by ensembl - see ensembl.tiers.

Field Summary

Fields inherited from class apollo.gui.drawable.DrawableSeqFeature

boxBounds, DECORATED, draw_level, drawable_parent, feature, flags, HIGHLIGHTED, is_drawn, LABELED, LEFTEDGE, logger, RIGHTEDGE, SELECTED, VISIBLE

Constructor Summary

DrawableGeneSeqFeature()

DrawableGeneSeqFeature(SeqFeatureI feature)

Method Summary

protected void	addDecorations(java.awt.Graphics g, java.awt.Rectangle box, Transformer transformer, TierManagerI manager) Draws in translated sequence if feature is an ExonI, its zoomed in, seq is available, and it is in a coding region
void	drawSelected(java.awt.Graphics g, java.awt.Rectangle boxBounds, Transformer transformer, TierManagerI manager)
void	drawUnselected(java.awt.Graphics g, java.awt.Rectangle boxBounds, Transformer transformer, TierManagerI manager)
protected java.awt.Color	residueColorForTranscript(FeatureSetI fs)
void	setHighlights(boolean state)
void	setSelected(boolean state) Set whether this Drawable is currently selected or not.

Methods inherited from class apollo.gui.drawable.DrawableSeqFeature

accept, addHighlights, contains, deleteDrawable, draw, draw, drawMissing, drawStartAndStopCodons, feature_draw, findDrawable, fontColorForBackground, getBoxBounds, getCharY, getCodonX, getDisplayLabel, getDrawableColor, getDrawLevel, getEnd, getFeature, getFeatureProperty, getFeatureType, getHigh, getLeft, getLeftmostVisible, getLow, getName, getRefDrawable, getRight, getSize, getStart, getStrand, getTierIndex, getType, getYCentre, getYSpace, intersects, isDecorated, isDrawn, isForwardStrand, isHighlighted, isLabeled, isLeftEdge, isRightEdge, isSelected, isVisible, sameFeature, setBoxBounds, setDrawLevel, setDrawn, setEdgeHighlights, setFeature, setHighlighted, setLabeled, setLabeled, setRefDrawable, setTierIndex, setVisible, synchFeatureProperty, wantToDraw

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Methods inherited from interface apollo.gui.drawable.Drawable

deleteDrawable, draw, draw, findDrawable, getBoxBounds, getDisplayLabel, getDrawLevel, getEnd, getFeature, getFeatureProperty, getHigh, getLeft, getLow, getName, getRefDrawable, getRight, getSize, getStart, getStrand, getTierIndex, getType, intersects, isDecorated, isDrawn, isVisible, setBoxBounds, setDrawLevel, setDrawn, setEdgeHighlights, setFeature, setHighlighted, setRefDrawable, setTierIndex, setVisible, synchFeatureProperty

Methods inherited from interface apollo.gui.SelectableI

isSelected

Constructor Detail

DrawableGeneSeqFeature

public DrawableGeneSeqFeature()

DrawableGeneSeqFeature

public DrawableGeneSeqFeature(SeqFeatureI feature)

Method Detail

drawSelected

public void drawSelected(java.awt.Graphics g,
                         java.awt.Rectangle boxBounds,
                         Transformer transformer,
                         TierManagerI manager)

Overrides:

drawSelected in class DrawableSeqFeature

drawUnselected

public void drawUnselected(java.awt.Graphics g,
                           java.awt.Rectangle boxBounds,
                           Transformer transformer,
                           TierManagerI manager)

Overrides:

drawUnselected in class DrawableSeqFeature

addDecorations

protected void addDecorations(java.awt.Graphics g,
                              java.awt.Rectangle box,
                              Transformer transformer,
                              TierManagerI manager)

Draws in translated sequence if feature is an ExonI, its zoomed in, seq is available, and it is in a coding region

Overrides:

addDecorations in class DrawableSeqFeature

residueColorForTranscript

protected java.awt.Color residueColorForTranscript(FeatureSetI fs)

setHighlights

public void setHighlights(boolean state)

setSelected

public void setSelected(boolean state)

Description copied from interface: SelectableI

Set whether this Drawable is currently selected or not.

Specified by:

setSelected in interface SelectableI

Overrides:

setSelected in class DrawableSeqFeature