public class ColourSchemeMapper
{
+ private static ColourSchemeI csZappo, csTaylor, csNucleotide, csPurine,
+ csHelix, csTurn, csStrand, csBuried, csHydro,
+ csRNAInteractionType, csPID, csBlosum62 = null;
+ static
+ {
+ csZappo = new ZappoColourScheme();
+ csTaylor = new TaylorColourScheme();
+ csNucleotide = new NucleotideColourScheme();
+ csPurine = new PurinePyrimidineColourScheme();
+ csHelix = new HelixColourScheme();
+ csTurn = new TurnColourScheme();
+ csStrand = new StrandColourScheme();
+ csBuried = new BuriedColourScheme();
+ csHydro = new HydrophobicColourScheme();
+ csRNAInteractionType = new RNAInteractionColourScheme();
+ csPID = new PIDColourScheme();
+ csBlosum62 = new Blosum62ColourScheme();
+ }
+
public static ColourSchemeI getJalviewColourScheme(
String colourSchemeName, AnnotatedCollectionI annotCol)
{
switch (colourSchemeName.toUpperCase())
{
case "ZAPPO":
- return new ZappoColourScheme();
+ return csZappo;
case "TAYLOR":
- return new TaylorColourScheme();
+ return csTaylor;
case "NUCLEOTIDE":
- return new NucleotideColourScheme();
+ return csNucleotide;
case "PURINE":
case "PURINE/PYRIMIDINE":
- return new PurinePyrimidineColourScheme();
+ return csPurine;
case "HELIX":
case "HELIX PROPENSITY":
- return new HelixColourScheme();
+ return csHelix;
case "TURN":
case "TURN PROPENSITY":
- return new TurnColourScheme();
+ return csTurn;
case "STRAND":
case "STRAND PROPENSITY":
- return new StrandColourScheme();
+ return csStrand;
case "BURIED":
case "BURIED INDEX":
- return new BuriedColourScheme();
+ return csBuried;
case "HYDRO":
case "HYDROPHOBIC":
- return new HydrophobicColourScheme();
+ return csHydro;
case "RNA INTERACTION TYPE":
- return new RNAInteractionColourScheme();
+ return csRNAInteractionType;
case "PID":
case "% IDENTITY":
- return new PIDColourScheme();
+ return csPID;
case "BLOSUM62":
- return new Blosum62ColourScheme();
+ return csBlosum62;
case "T-COFFEE SCORES":
return (annotCol != null) ? new TCoffeeColourScheme(annotCol) : null;
case "RNA HELICES":