merge from develop

[jalview.git] / src / jalview / json / binding / biojson / v1 / JalviewBioJsColorSchemeMapper.java

diff --git a/src/jalview/json/binding/biojson/v1/JalviewBioJsColorSchemeMapper.java b/src/jalview/json/binding/biojson/v1/JalviewBioJsColorSchemeMapper.java
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+++ b/src/jalview/json/binding/biojson/v1/JalviewBioJsColorSchemeMapper.java
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+package jalview.json.binding.biojson.v1;
+
+import jalview.schemes.Blosum62ColourScheme;
+import jalview.schemes.BuriedColourScheme;
+import jalview.schemes.ColourSchemeI;
+import jalview.schemes.HelixColourScheme;
+import jalview.schemes.HydrophobicColourScheme;
+import jalview.schemes.NucleotideColourScheme;
+import jalview.schemes.PIDColourScheme;
+import jalview.schemes.PurinePyrimidineColourScheme;
+import jalview.schemes.RNAInteractionColourScheme;
+import jalview.schemes.StrandColourScheme;
+import jalview.schemes.TaylorColourScheme;
+import jalview.schemes.TurnColourScheme;
+import jalview.schemes.ZappoColourScheme;
+
+public enum JalviewBioJsColorSchemeMapper
+{
+
+  USER_DEFINED("User Defined", "user defined", null), NONE("None", "foo",
+          null), CLUSTAL("Clustal", "clustal", null), ZAPPO("Zappo",
+          "zappo", new ZappoColourScheme()), TAYLOR("Taylor", "taylor",
+          new TaylorColourScheme()), NUCLEOTIDE("Nucleotide", "nucleotide",
+          new NucleotideColourScheme()), PURINE_PYRIMIDINE(
+          "Purine/Pyrimidine", "purine", new PurinePyrimidineColourScheme()), HELIX_PROPENCITY(
+          "Helix Propensity", "helix", new HelixColourScheme()), TURN_PROPENSITY(
+          "Turn Propensity", "turn", new TurnColourScheme()), STRAND_PROPENSITY(
+          "Strand Propensity", "strand", new StrandColourScheme()), BURIED_INDEX(
+          "Buried Index", "buried", new BuriedColourScheme()), HYDROPHOBIC(
+          "Hydrophobic", "hydro", new HydrophobicColourScheme()),
+
+  // The color types below are not yet supported by BioJs MSA viewer
+  T_COFFE_SCORES("T-Coffee Scores", "T-Coffee Scores", null), RNA_INT_TYPE(
+          "RNA Interaction type", "RNA Interaction type",
+          new RNAInteractionColourScheme()), BLOSUM62("Blosum62",
+          "Blosum62", new Blosum62ColourScheme()), RNA_HELICES(
+          "RNA Helices", "RNA Helices", null), PERCENTAGE_IDENTITY(
+          "% Identity", "pid", new PIDColourScheme());
+
+  private String jalviewName;
+
+  private String bioJsName;
+
+  private ColourSchemeI jvColourScheme;
+
+  private JalviewBioJsColorSchemeMapper(String jalviewName,
+          String bioJsName, ColourSchemeI jvColourScheme)
+  {
+    this.jalviewName = jalviewName;
+    this.bioJsName = bioJsName;
+    this.setJvColourScheme(jvColourScheme);
+  }
+
+  public String getJalviewName()
+  {
+    return jalviewName;
+  }
+
+  public String getBioJsName()
+  {
+    return bioJsName;
+  }
+
+  public ColourSchemeI getJvColourScheme()
+  {
+    return jvColourScheme;
+  }
+
+  public void setJvColourScheme(ColourSchemeI jvColourScheme)
+  {
+    this.jvColourScheme = jvColourScheme;
+  }
+
+}