Clazz.declarePackage("J.adapter.readers.xml");
Clazz.load(["J.adapter.readers.xml.XmlReader"], "J.adapter.readers.xml.XmlQEReader", ["JU.PT", "JU.Logger"], function(){
var c$ = Clazz.decorateAsClass(function(){
this.a = 0;
this.b = 0;
this.c = 0;
Clazz.instantialize(this, arguments);}, J.adapter.readers.xml, "XmlQEReader", J.adapter.readers.xml.XmlReader);
Clazz.makeConstructor(c$, 
function(){
Clazz.superConstructor (this, J.adapter.readers.xml.XmlQEReader, []);
});
Clazz.overrideMethod(c$, "processXml", 
function(parent, saxReader){
parent.doProcessLines = true;
this.processXml2(parent, saxReader);
}, "J.adapter.readers.xml.XmlReader,~O");
Clazz.overrideMethod(c$, "processStartElement", 
function(localName, nodeName){
if (this.debugging) JU.Logger.debug("xmlqe: start " + localName);
if (!this.parent.continuing) return;
if ("number_of_atoms".equals(localName) || "cell_dimensions".equals(localName) || "at".equals(localName)) {
this.setKeepChars(true);
return;
}if (localName.startsWith("atom.")) {
this.parent.setAtomCoordScaled(null, JU.PT.getTokens(this.atts.get("tau")), 0, 0.5291772).elementSymbol = this.atts.get("species").trim();
}if ("structure".equals(localName)) {
if (!this.parent.doGetModel(++this.parent.modelNumber, null)) {
this.parent.checkLastModel();
return;
}this.parent.setFractionalCoordinates(true);
this.asc.doFixPeriodic = true;
this.asc.newAtomSet();
return;
}if (!this.parent.doProcessLines) return;
}, "~S,~S");
Clazz.overrideMethod(c$, "processEndElement", 
function(localName){
if (this.debugging) JU.Logger.debug("xmlqe: end " + localName);
while (true) {
if (!this.parent.doProcessLines) break;
if ("cell_dimensions".equals(localName)) {
this.parent.setFractionalCoordinates(true);
var data = J.adapter.smarter.AtomSetCollectionReader.getTokensFloat(this.chars.toString(), null, 6);
this.a = data[0];
this.b = (data[1] == 0 ? this.a : data[1]);
this.c = (data[2] == 0 ? this.a : data[2]);
break;
}if ("at".equals(localName)) {
var m = J.adapter.smarter.AtomSetCollectionReader.getTokensFloat(this.chars.toString(), null, 9);
for (var i = 0; i < 9; i += 3) {
m[i] *= this.a;
m[i + 1] *= this.b;
m[i + 2] *= this.c;
}
this.parent.addExplicitLatticeVector(0, m, 0);
this.parent.addExplicitLatticeVector(1, m, 3);
this.parent.addExplicitLatticeVector(2, m, 6);
break;
}if ("geometry_info".equals(localName)) {
try {
this.parent.applySymmetryAndSetTrajectory();
} catch (e) {
if (Clazz.exceptionOf(e, Exception)){
} else {
throw e;
}
}
break;
}return;
}
this.setKeepChars(false);
}, "~S");
});
;//5.0.1-v7 Mon Aug 17 10:07:10 MDT 2026
