src/jalview/json/binding/biojson/v1/JalviewBioJsColorSchemeMapper.java

   1 package jalview.json.binding.biojson.v1;
   2
   3 import jalview.schemes.Blosum62ColourScheme;
   4 import jalview.schemes.BuriedColourScheme;
   5 import jalview.schemes.ColourSchemeI;
   6 import jalview.schemes.HelixColourScheme;
   7 import jalview.schemes.HydrophobicColourScheme;
   8 import jalview.schemes.NucleotideColourScheme;
   9 import jalview.schemes.PIDColourScheme;
  10 import jalview.schemes.PurinePyrimidineColourScheme;
  11 import jalview.schemes.RNAInteractionColourScheme;
  12 import jalview.schemes.StrandColourScheme;
  13 import jalview.schemes.TaylorColourScheme;
  14 import jalview.schemes.TurnColourScheme;
  15 import jalview.schemes.ZappoColourScheme;
  16
  17 public enum JalviewBioJsColorSchemeMapper
  18 {
  19
  20   USER_DEFINED("User Defined", "user defined", null), NONE("None", "foo",
  21           null), CLUSTAL("Clustal", "clustal", null), ZAPPO("Zappo",
  22           "zappo", new ZappoColourScheme()), TAYLOR("Taylor", "taylor",
  23           new TaylorColourScheme()), NUCLEOTIDE("Nucleotide", "nucleotide",
  24           new NucleotideColourScheme()), PURINE_PYRIMIDINE(
  25           "Purine/Pyrimidine", "purine", new PurinePyrimidineColourScheme()), HELIX_PROPENSITY(
  26           "Helix Propensity", "helix", new HelixColourScheme()), TURN_PROPENSITY(
  27           "Turn Propensity", "turn", new TurnColourScheme()), STRAND_PROPENSITY(
  28           "Strand Propensity", "strand", new StrandColourScheme()), BURIED_INDEX(
  29           "Buried Index", "buried", new BuriedColourScheme()), HYDROPHOBIC(
  30           "Hydrophobic", "hydro", new HydrophobicColourScheme()),
  31
  32   // The color types below are not yet supported by BioJs MSA viewer
  33   T_COFFE_SCORES("T-Coffee Scores", "T-Coffee Scores", null), RNA_INT_TYPE(
  34           "RNA Interaction type", "RNA Interaction type",
  35           new RNAInteractionColourScheme()), BLOSUM62("Blosum62",
  36           "Blosum62", new Blosum62ColourScheme()), RNA_HELICES(
  37           "RNA Helices", "RNA Helices", null), PERCENTAGE_IDENTITY(
  38           "% Identity", "pid", new PIDColourScheme());
  39
  40   private String jalviewName;
  41
  42   private String bioJsName;
  43
  44   private ColourSchemeI jvColourScheme;
  45
  46   private JalviewBioJsColorSchemeMapper(String jalviewName,
  47           String bioJsName, ColourSchemeI jvColourScheme)
  48   {
  49     this.jalviewName = jalviewName;
  50     this.bioJsName = bioJsName;
  51     this.setJvColourScheme(jvColourScheme);
  52   }
  53
  54   public String getJalviewName()
  55   {
  56     return jalviewName;
  57   }
  58
  59   public String getBioJsName()
  60   {
  61     return bioJsName;
  62   }
  63
  64   public ColourSchemeI getJvColourScheme()
  65   {
  66     return jvColourScheme;
  67   }
  68
  69   public void setJvColourScheme(ColourSchemeI jvColourScheme)
  70   {
  71     this.jvColourScheme = jvColourScheme;
  72   }
  73
  74 }