Clazz.declarePackage ("jalview.analysis");
-Clazz.load (null, "jalview.analysis.Conservation", ["jalview.datamodel.Annotation", "$.Sequence", "jalview.schemes.ResidueProperties", "jalview.util.Comparison", "java.awt.Color", "java.lang.Character", "$.Double", "$.StringBuffer", "java.util.Hashtable", "$.Vector", "JU.DebugJS"], function () {
+Clazz.load (null, "jalview.analysis.Conservation", ["jalview.datamodel.Annotation", "$.Sequence", "jalview.schemes.ResidueProperties", "jalview.util.Comparison", "java.awt.Color", "java.lang.Character", "$.Double", "$.StringBuffer", "java.util.Hashtable", "$.Vector"], function () {
c$ = Clazz.decorateAsClass (function () {
this.sequences = null;
this.start = 0;
vprop /= qmax;
quality2.annotations[i] = new jalview.datamodel.Annotation (" ", String.valueOf (value), ' ', value, new java.awt.Color (minR + (maxR * vprop), minG + (maxG * vprop), minB + (maxB * vprop)));
}}
-JU.DebugJS._ ("Conservation");
}, "jalview.datamodel.AlignmentAnnotation,jalview.datamodel.AlignmentAnnotation,~N,~N");
c$.calculateConservation = Clazz.defineMethod (c$, "calculateConservation",
function (name, consHash, threshold, seqs, start, end, posOrNeg, consPercGaps, calcQuality) {