X-Git-Url: http://source.jalview.org/gitweb/?p=jalviewjs.git;a=blobdiff_plain;f=site%2Fj2s%2Fjalview%2Fappletgui%2FAnnotationRowFilter.js;h=aafbcad4ae6c4942fffd6b2a33744e586991bb66;hp=8b9fe703ea6c1a68698937ebcb10418cf2b525fd;hb=b9b7a352eee79b7764c3b09c9d19663075061d8c;hpb=7301a2415adab88038b291fc54caeeb3a5a47a44

diff --git a/site/j2s/jalview/appletgui/AnnotationRowFilter.js b/site/j2s/jalview/appletgui/AnnotationRowFilter.js
index 8b9fe70..aafbcad 100644
--- a/site/j2s/jalview/appletgui/AnnotationRowFilter.js
+++ b/site/j2s/jalview/appletgui/AnnotationRowFilter.js
@@ -1,131 +1,131 @@
-Clazz.declarePackage ("jalview.appletgui");
-Clazz.load (["awt2swing.Panel", "$.Button", "$.Checkbox", "$.Scrollbar", "$.TextField"], "jalview.appletgui.AnnotationRowFilter", ["jalview.util.MessageManager", "java.lang.Float", "java.util.Vector"], function () {
-c$ = Clazz.decorateAsClass (function () {
-this.av = null;
-this.ap = null;
-this.annmap = null;
-this.enableSeqAss = false;
-this.currentAnnotation = null;
-this.adjusting = false;
-this.currentColours = null;
-this.minColour = null;
-this.maxColour = null;
-this.seqAssociated = null;
-this.thresholdIsMin = null;
-this.slider = null;
-this.thresholdValue = null;
-this.frame = null;
-this.ok = null;
-this.cancel = null;
-this.sliderDragging = false;
-Clazz.instantialize (this, arguments);
-}, jalview.appletgui, "AnnotationRowFilter", awt2swing.Panel);
-Clazz.prepareFields (c$, function () {
-this.currentColours =  new awt2swing.Checkbox ();
-this.minColour =  new awt2swing.Panel ();
-this.maxColour =  new awt2swing.Panel ();
-this.seqAssociated =  new awt2swing.Checkbox ();
-this.thresholdIsMin =  new awt2swing.Checkbox ();
-this.slider =  new awt2swing.Scrollbar (0);
-this.thresholdValue =  new awt2swing.TextField (20);
-this.ok =  new awt2swing.Button ();
-this.cancel =  new awt2swing.Button ();
-});
-Clazz.makeConstructor (c$, 
-function (av, ap) {
-Clazz.superConstructor (this, jalview.appletgui.AnnotationRowFilter, []);
-this.av = av;
-this.ap = ap;
-}, "jalview.appletgui.AlignViewport,jalview.appletgui.AlignmentPanel");
-Clazz.makeConstructor (c$, 
-function () {
-Clazz.superConstructor (this, jalview.appletgui.AnnotationRowFilter, []);
-});
-Clazz.defineMethod (c$, "getAnnotationItems", 
-function (isSeqAssociated) {
-var list =  new java.util.Vector ();
-var index = 1;
-var anmap =  Clazz.newIntArray (this.av.getAlignment ().getAlignmentAnnotation ().length, 0);
-for (var i = 0; i < this.av.getAlignment ().getAlignmentAnnotation ().length; i++) {
-if (this.av.getAlignment ().getAlignmentAnnotation ()[i].sequenceRef == null) {
-if (isSeqAssociated) {
-continue;
-}} else {
-this.enableSeqAss = true;
-}var label = this.av.getAlignment ().getAlignmentAnnotation ()[i].label;
-if (!list.contains (label)) {
-anmap[list.size ()] = i;
-list.add (label);
-} else {
-if (!isSeqAssociated) {
-anmap[list.size ()] = i;
-list.add (label + "_" + (index++));
-}}}
-this.annmap =  Clazz.newIntArray (list.size (), 0);
-System.arraycopy (anmap, 0, this.annmap, 0, this.annmap.length);
-return list;
-}, "~B");
-Clazz.defineMethod (c$, "getSelectedThresholdItem", 
-function (indexValue) {
-var selectedThresholdItem = -1;
-if (indexValue == 1) {
-selectedThresholdItem = 1;
-} else if (indexValue == 2) {
-selectedThresholdItem = 0;
-}return selectedThresholdItem;
-}, "~N");
-Clazz.defineMethod (c$, "modelChanged", 
-function () {
-this.seqAssociated.setEnabled (this.enableSeqAss);
-});
-Clazz.defineMethod (c$, "ok_actionPerformed", 
-function (e) {
-this.updateView ();
-this.frame.setVisible (false);
-}, "java.awt.event.ActionEvent");
-Clazz.defineMethod (c$, "cancel_actionPerformed", 
-function (e) {
-this.reset ();
-this.ap.paintAlignment (true);
-this.frame.setVisible (false);
-}, "java.awt.event.ActionEvent");
-Clazz.defineMethod (c$, "thresholdCheck_actionPerformed", 
-function (e) {
-this.updateView ();
-}, "java.awt.event.ActionEvent");
-Clazz.defineMethod (c$, "annotations_actionPerformed", 
-function (e) {
-this.updateView ();
-}, "java.awt.event.ActionEvent");
-Clazz.defineMethod (c$, "threshold_actionPerformed", 
-function (e) {
-this.updateView ();
-}, "java.awt.event.ActionEvent");
-Clazz.defineMethod (c$, "thresholdValue_actionPerformed", 
-function (e) {
-try {
-var f = Float.parseFloat (this.thresholdValue.getText ());
-this.slider.setValue (Clazz.floatToInt (f * 1000));
-this.updateView ();
-} catch (ex) {
-if (Clazz.exceptionOf (ex, NumberFormatException)) {
-} else {
-throw ex;
-}
-}
-}, "java.awt.event.ActionEvent");
-Clazz.defineMethod (c$, "populateThresholdComboBox", 
-function (threshold) {
-threshold.addItem (jalview.util.MessageManager.getString ("label.threshold_feature_no_thereshold"));
-threshold.addItem (jalview.util.MessageManager.getString ("label.threshold_feature_above_thereshold"));
-threshold.addItem (jalview.util.MessageManager.getString ("label.threshold_feature_below_thereshold"));
-}, "awt2swing.Choice");
-Clazz.defineMethod (c$, "getCurrentAnnotation", 
-function () {
-return this.currentAnnotation;
-});
-Clazz.defineMethod (c$, "setCurrentAnnotation", 
-function (currentAnnotation) {
-this.currentAnnotation = currentAnnotation;
-}, "jalview.datamodel.AlignmentAnnotation");
-});
+Clazz.declarePackage ("jalview.appletgui");
+Clazz.load (["awt2swing.Panel", "$.Button", "$.Checkbox", "$.Scrollbar", "$.TextField"], "jalview.appletgui.AnnotationRowFilter", ["jalview.util.MessageManager", "java.lang.Float", "java.util.Vector"], function () {
+c$ = Clazz.decorateAsClass (function () {
+this.av = null;
+this.ap = null;
+this.annmap = null;
+this.enableSeqAss = false;
+this.currentAnnotation = null;
+this.adjusting = false;
+this.currentColours = null;
+this.minColour = null;
+this.maxColour = null;
+this.seqAssociated = null;
+this.thresholdIsMin = null;
+this.slider = null;
+this.thresholdValue = null;
+this.frame = null;
+this.ok = null;
+this.cancel = null;
+this.sliderDragging = false;
+Clazz.instantialize (this, arguments);
+}, jalview.appletgui, "AnnotationRowFilter", awt2swing.Panel);
+Clazz.prepareFields (c$, function () {
+this.currentColours =  new awt2swing.Checkbox ();
+this.minColour =  new awt2swing.Panel ();
+this.maxColour =  new awt2swing.Panel ();
+this.seqAssociated =  new awt2swing.Checkbox ();
+this.thresholdIsMin =  new awt2swing.Checkbox ();
+this.slider =  new awt2swing.Scrollbar (0);
+this.thresholdValue =  new awt2swing.TextField (20);
+this.ok =  new awt2swing.Button ();
+this.cancel =  new awt2swing.Button ();
+});
+Clazz.makeConstructor (c$, 
+function (av, ap) {
+Clazz.superConstructor (this, jalview.appletgui.AnnotationRowFilter, []);
+this.av = av;
+this.ap = ap;
+}, "jalview.appletgui.AlignViewport,jalview.appletgui.AlignmentPanel");
+Clazz.makeConstructor (c$, 
+function () {
+Clazz.superConstructor (this, jalview.appletgui.AnnotationRowFilter, []);
+});
+Clazz.defineMethod (c$, "getAnnotationItems", 
+function (isSeqAssociated) {
+var list =  new java.util.Vector ();
+var index = 1;
+var anmap =  Clazz.newIntArray (this.av.getAlignment ().getAlignmentAnnotation ().length, 0);
+for (var i = 0; i < this.av.getAlignment ().getAlignmentAnnotation ().length; i++) {
+if (this.av.getAlignment ().getAlignmentAnnotation ()[i].sequenceRef == null) {
+if (isSeqAssociated) {
+continue;
+}} else {
+this.enableSeqAss = true;
+}var label = this.av.getAlignment ().getAlignmentAnnotation ()[i].label;
+if (!list.contains (label)) {
+anmap[list.size ()] = i;
+list.add (label);
+} else {
+if (!isSeqAssociated) {
+anmap[list.size ()] = i;
+list.add (label + "_" + (index++));
+}}}
+this.annmap =  Clazz.newIntArray (list.size (), 0);
+System.arraycopy (anmap, 0, this.annmap, 0, this.annmap.length);
+return list;
+}, "~B");
+Clazz.defineMethod (c$, "getSelectedThresholdItem", 
+function (indexValue) {
+var selectedThresholdItem = -1;
+if (indexValue == 1) {
+selectedThresholdItem = 1;
+} else if (indexValue == 2) {
+selectedThresholdItem = 0;
+}return selectedThresholdItem;
+}, "~N");
+Clazz.defineMethod (c$, "modelChanged", 
+function () {
+this.seqAssociated.setEnabled (this.enableSeqAss);
+});
+Clazz.defineMethod (c$, "ok_actionPerformed", 
+function (e) {
+this.updateView ();
+this.frame.setVisible (false);
+}, "java.awt.event.ActionEvent");
+Clazz.defineMethod (c$, "cancel_actionPerformed", 
+function (e) {
+this.reset ();
+this.ap.paintAlignment (true);
+this.frame.setVisible (false);
+}, "java.awt.event.ActionEvent");
+Clazz.defineMethod (c$, "thresholdCheck_actionPerformed", 
+function (e) {
+this.updateView ();
+}, "java.awt.event.ActionEvent");
+Clazz.defineMethod (c$, "annotations_actionPerformed", 
+function (e) {
+this.updateView ();
+}, "java.awt.event.ActionEvent");
+Clazz.defineMethod (c$, "threshold_actionPerformed", 
+function (e) {
+this.updateView ();
+}, "java.awt.event.ActionEvent");
+Clazz.defineMethod (c$, "thresholdValue_actionPerformed", 
+function (e) {
+try {
+var f = Float.parseFloat (this.thresholdValue.getText ());
+this.slider.setValue (Clazz.floatToInt (f * 1000));
+this.updateView ();
+} catch (ex) {
+if (Clazz.exceptionOf (ex, NumberFormatException)) {
+} else {
+throw ex;
+}
+}
+}, "java.awt.event.ActionEvent");
+Clazz.defineMethod (c$, "populateThresholdComboBox", 
+function (threshold) {
+threshold.addItem (jalview.util.MessageManager.getString ("label.threshold_feature_no_thereshold"));
+threshold.addItem (jalview.util.MessageManager.getString ("label.threshold_feature_above_thereshold"));
+threshold.addItem (jalview.util.MessageManager.getString ("label.threshold_feature_below_thereshold"));
+}, "awt2swing.Choice");
+Clazz.defineMethod (c$, "getCurrentAnnotation", 
+function () {
+return this.currentAnnotation;
+});
+Clazz.defineMethod (c$, "setCurrentAnnotation", 
+function (currentAnnotation) {
+this.currentAnnotation = currentAnnotation;
+}, "jalview.datamodel.AlignmentAnnotation");
+});