1 Clazz.declarePackage ("jalview.schemes");
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2 Clazz.load (["jalview.schemes.ResidueColourScheme"], "jalview.schemes.NucleotideColourScheme", ["jalview.schemes.ResidueProperties", "java.awt.Color"], function () {
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3 c$ = Clazz.declareType (jalview.schemes, "NucleotideColourScheme", jalview.schemes.ResidueColourScheme);
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4 Clazz.makeConstructor (c$,
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6 Clazz.superConstructor (this, jalview.schemes.NucleotideColourScheme, [jalview.schemes.ResidueProperties.nucleotideIndex, jalview.schemes.ResidueProperties.nucleotide, 0]);
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8 Clazz.defineMethod (c$, "findColour",
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10 return this.colors[jalview.schemes.ResidueProperties.nucleotideIndex[c.charCodeAt (0)]];
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12 Clazz.defineMethod (c$, "findColour",
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13 function (c, j, seq) {
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15 if ((this.threshold == 0) || this.aboveThreshold (c, j)) {
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17 currentColour = this.colors[jalview.schemes.ResidueProperties.nucleotideIndex[c.charCodeAt (0)]];
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19 if (Clazz.exceptionOf (ex, Exception)) {
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20 return java.awt.Color.white;
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26 return java.awt.Color.white;
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27 }if (this.conservationColouring) {
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28 currentColour = this.applyConservation (currentColour, j);
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29 }return currentColour;
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30 }, "~S,~N,jalview.datamodel.SequenceI");
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