info.bioinfweb.libralign.alignmentarea.tokenpainter

Class AminoAcidTokenPainter

java.lang.Object

info.bioinfweb.libralign.alignmentarea.tokenpainter.AbstractTokenPainter

info.bioinfweb.libralign.alignmentarea.tokenpainter.SingleColorTokenPainter

info.bioinfweb.libralign.alignmentarea.tokenpainter.AbstractBioPolymerTokenPainter

info.bioinfweb.libralign.alignmentarea.tokenpainter.AminoAcidTokenPainter

All Implemented Interfaces:

TokenPainter

public class AminoAcidTokenPainter
extends AbstractBioPolymerTokenPainter

Token painter that paints amino acids.

Since:

0.4.0

Author:

Ben Stöver

Field Summary

Fields inherited from class info.bioinfweb.libralign.alignmentarea.tokenpainter.SingleColorTokenPainter

DEFAULT_HEIGHT, DEFAULT_WIDTH, FONT_SIZE_FACTOR, MIN_FONT_SIZE

Constructor Summary

Constructors

Constructor and Description
AminoAcidTokenPainter()

Method Summary

Modifier and Type	Method and Description
java.awt.Color	backgroundColorByRepresentation(java.lang.String tokenRepresentation, java.awt.Color selectionColor) Returns the same color as SingleColorTokenPainter.getColor(String) but blends it with a selection color, if one is specified.
protected char[]	calculateConstituents(java.lang.String tokenRepresentation) To be implemented by inherited classes to determine the non-ambiguous tokens that could be represented by the specified ambiguity code.
protected boolean	isAmbiguity(java.lang.String tokenRepresentation) To be implemented by inherited classes to determine whether the specified token representation is an ambiguity code.
protected void	putAminoAcidColors()

Methods inherited from class info.bioinfweb.libralign.alignmentarea.tokenpainter.AbstractBioPolymerTokenPainter

doPaintToken

Methods inherited from class info.bioinfweb.libralign.alignmentarea.tokenpainter.SingleColorTokenPainter

calculateFont, calculatePreferredWidth, equals, getBackgroundColorMap, getColor, getDefaultBackgroundColor, getFontColor, getFontName, getFontStyle, getPreferredHeight, getPreferredWidth, hashCode, paintText, setDefaultBackgroundColor, setFontColor, setFontName, setFontStyle

Methods inherited from class info.bioinfweb.libralign.alignmentarea.tokenpainter.AbstractTokenPainter

paintToken

Methods inherited from class java.lang.Object

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

Methods inherited from interface info.bioinfweb.libralign.alignmentarea.tokenpainter.TokenPainter

paintToken

Constructor Detail

AminoAcidTokenPainter

public AminoAcidTokenPainter()

Method Detail

putAminoAcidColors

protected void putAminoAcidColors()

isAmbiguity

protected boolean isAmbiguity(java.lang.String tokenRepresentation)

Description copied from class: AbstractBioPolymerTokenPainter

To be implemented by inherited classes to determine whether the specified token representation is an ambiguity code.

Specified by:

isAmbiguity in class AbstractBioPolymerTokenPainter

Parameters:

tokenRepresentation - the token representation

Returns:

true if the token is ambiguous and shall have a background with multiple colors, false otherwise

calculateConstituents

protected char[] calculateConstituents(java.lang.String tokenRepresentation)

Description copied from class: AbstractBioPolymerTokenPainter

To be implemented by inherited classes to determine the non-ambiguous tokens that could be represented by the specified ambiguity code.

Specified by:

calculateConstituents in class AbstractBioPolymerTokenPainter

Parameters:

tokenRepresentation - the ambiguous token representation

Returns:

an array with according token representations

backgroundColorByRepresentation

public java.awt.Color backgroundColorByRepresentation(java.lang.String tokenRepresentation,
                                                      java.awt.Color selectionColor)

Description copied from class: SingleColorTokenPainter

Returns the same color as SingleColorTokenPainter.getColor(String) but blends it with a selection color, if one is specified.

Overrides:

backgroundColorByRepresentation in class SingleColorTokenPainter

Parameters:

tokenRepresentation - the string representation of the token

selectionColor - the color of the selection in the associated alignment area (may be null)

Returns:

the color to fill the background of a token with