Clazz.declarePackage("J.adapter.smarter");
Clazz.load(null, "J.adapter.smarter.Structure", ["J.c.STR"], function(){
var c$ = Clazz.decorateAsClass(function(){
this.structureType = null;
this.substructureType = null;
this.structureID = null;
this.strandID = null;
this.strandCount = 0;
this.startSequenceNumber = 0;
this.startChainID = 0;
this.startInsertionCode = '\0';
this.endSequenceNumber = 0;
this.endChainID = 0;
this.endInsertionCode = '\0';
this.atomStartEnd = null;
this.modelStartEnd = null;
this.bsAll = null;
Clazz.instantialize(this, arguments);}, J.adapter.smarter, "Structure", null, Cloneable);
Clazz.prepareFields (c$, function(){
this.atomStartEnd =  Clazz.newIntArray (2, 0);
this.modelStartEnd =  Clazz.newIntArray(-1, [-1, -1]);
});
Clazz.makeConstructor(c$, 
function(modelIndex, structureType, substructureType, structureID, strandID, strandCount, bsAll){
if (bsAll != null) {
this.modelStartEnd =  Clazz.newIntArray(-1, [0, modelIndex]);
this.bsAll = bsAll;
return;
}this.structureType = structureType;
this.substructureType = substructureType;
if (structureID == null) return;
this.modelStartEnd[0] = this.modelStartEnd[1] = modelIndex;
this.structureID = structureID;
this.strandCount = strandCount;
this.strandID = strandID;
}, "~N,J.c.STR,J.c.STR,~S,~S,~N,~A");
c$.getHelixType = Clazz.defineMethod(c$, "getHelixType", 
function(type){
switch (type) {
case 1:
return J.c.STR.HELIXALPHA;
case 3:
return J.c.STR.HELIXPI;
case 5:
return J.c.STR.HELIX310;
}
return J.c.STR.HELIX;
}, "~N");
Clazz.defineMethod(c$, "set", 
function(startChainID, startSequenceNumber, startInsertionCode, endChainID, endSequenceNumber, endInsertionCode, istart, iend){
this.startChainID = startChainID;
this.startSequenceNumber = startSequenceNumber;
this.startInsertionCode = startInsertionCode;
this.endChainID = endChainID;
this.endSequenceNumber = endSequenceNumber;
this.endInsertionCode = endInsertionCode;
this.atomStartEnd[0] = istart;
this.atomStartEnd[1] = iend;
}, "~N,~N,~S,~N,~N,~S,~N,~N");
Clazz.defineMethod(c$, "clone", 
function(){
var s = null;
try {
s = Clazz.superCall(this, J.adapter.smarter.Structure, "clone", []);
} catch (e) {
if (Clazz.exceptionOf(e,"CloneNotSupportedException")){
} else {
throw e;
}
}
return s;
});
});
;//5.0.1-v7 Mon Aug 17 10:07:10 MDT 2026
