Clazz.declarePackage("J.renderbio");
Clazz.load(null, "J.renderbio.RocketRenderer", ["JU.P3", "$.V3", "J.c.STR", "JU.MeshSurface"], function(){
var c$ = Clazz.decorateAsClass(function(){
this.tPending = false;
this.proteinstructurePending = null;
this.startIndexPending = 0;
this.endIndexPending = 0;
this.vtemp = null;
this.screenA = null;
this.screenB = null;
this.screenC = null;
this.colix = 0;
this.mad = 0;
this.rr = null;
this.vwr = null;
this.g3d = null;
this.tm = null;
this.renderArrowHeads = false;
this.isRockets = false;
this.ptC = null;
this.ptTip = null;
this.corners = null;
this.screenCorners = null;
this.vW = null;
this.vH = null;
this.meshSurface = null;
Clazz.instantialize(this, arguments);}, J.renderbio, "RocketRenderer", null);
/*LV!1824 unnec constructor*/Clazz.defineMethod(c$, "set", 
function(rr){
this.screenA =  new JU.P3();
this.screenB =  new JU.P3();
this.screenC =  new JU.P3();
this.vtemp =  new JU.V3();
this.rr = rr;
this.vwr = rr.vwr;
this.tm = rr.vwr.tm;
this.isRockets = rr.isRockets;
return this;
}, "J.renderbio.RocketsRenderer");
Clazz.defineMethod(c$, "renderRockets", 
function(){
this.g3d = this.rr.g3d;
this.tPending = false;
this.renderArrowHeads = this.rr.renderArrowHeads;
var bsVisible = this.rr.bsVisible;
for (var i = bsVisible.nextSetBit(0); i >= 0; i = bsVisible.nextSetBit(i + 1)) {
if (this.rr.structureTypes[i] === J.c.STR.HELIX || this.isRockets && this.rr.structureTypes[i] === J.c.STR.SHEET) {
this.renderSpecialSegment(this.rr.monomers[i], this.rr.getLeadColix(i), this.rr.mads[i]);
} else if (this.isRockets) {
this.renderPending();
this.rr.renderHermiteConic(i, true, 7);
}}
this.renderPending();
});
Clazz.defineMethod(c$, "renderSpecialSegment", 
function(monomer, thisColix, thisMad){
var proteinstructure = monomer.proteinStructure;
if (this.tPending) {
if (proteinstructure === this.proteinstructurePending && thisMad == this.mad && thisColix == this.colix && proteinstructure.getIndex(monomer) == this.endIndexPending + 1) {
++this.endIndexPending;
return;
}this.renderPending();
}this.proteinstructurePending = proteinstructure;
this.startIndexPending = this.endIndexPending = proteinstructure.getIndex(monomer);
this.colix = thisColix;
this.mad = thisMad;
this.tPending = true;
}, "JM.AlphaMonomer,~N,~N");
Clazz.defineMethod(c$, "renderPending", 
function(){
if (!this.tPending) return;
var segments = this.proteinstructurePending.getSegments();
var renderArrowHead = (this.renderArrowHeads && this.endIndexPending == this.proteinstructurePending.nRes - 1);
if (Clazz.instanceOf(this.proteinstructurePending,"JM.Helix")) {
this.renderPendingRocketSegment(this.endIndexPending, segments[this.startIndexPending], segments[this.endIndexPending], segments[this.endIndexPending + 1], renderArrowHead);
} else if (Clazz.instanceOf(this.proteinstructurePending,"JM.Sheet") && Clazz.instanceOf((this.proteinstructurePending).apolymer,"JM.AminoPolymer")) {
this.renderPendingSheetPlank(segments[this.startIndexPending], segments[this.endIndexPending], segments[this.endIndexPending + 1], renderArrowHead);
} else {
this.tPending = false;
return;
}if (this.rr.renderStruts) {
this.rr.adjustStrut(segments, this.startIndexPending, this.endIndexPending, this.proteinstructurePending.monomerIndexFirst);
}this.tPending = false;
});
Clazz.defineMethod(c$, "renderPendingRocketSegment", 
function(i, pointStart, pointBeforeEnd, pointEnd, renderArrowHead){
if (this.g3d.setC(this.colix)) {
this.tm.transformPt3f(pointStart, this.screenA);
this.tm.transformPt3f((renderArrowHead ? pointBeforeEnd : pointEnd), this.screenB);
var zMid = Clazz.doubleToInt(Math.floor((this.screenA.z + this.screenB.z) / 2));
var diameter = (Clazz.floatToInt(this.vwr.tm.scaleToScreen(zMid, this.mad)));
if (!renderArrowHead || pointStart !== pointBeforeEnd) this.g3d.fillCylinderBits(2, diameter, this.screenA, this.screenB);
if (renderArrowHead) {
this.screenA.sub2(pointEnd, pointBeforeEnd);
this.tm.transformPt3f(pointEnd, this.screenC);
var coneDiameter = (this.mad << 1) - (this.mad >> 1);
coneDiameter = Clazz.floatToInt(this.vwr.tm.scaleToScreen(Clazz.doubleToInt(Math.floor(this.screenB.z)), coneDiameter));
this.g3d.fillConeScreen3f(2, coneDiameter, this.screenB, this.screenC, false);
}if (this.startIndexPending == this.endIndexPending) return;
var t = this.screenB;
this.screenB = this.screenC;
this.screenC = t;
}}, "~N,JU.P3,JU.P3,JU.P3,~B");
Clazz.defineMethod(c$, "renderPendingSheetPlank", 
function(ptStart, pointBeforeEnd, ptEnd, renderArrowHead){
if (!this.g3d.setC(this.colix)) return;
if (this.corners == null) {
this.ptC =  new JU.P3();
this.ptTip =  new JU.P3();
this.vW =  new JU.V3();
this.vH =  new JU.V3();
this.screenCorners =  new Array(8);
this.corners =  new Array(8);
for (var i = 8; --i >= 0; ) {
this.corners[i] =  new JU.P3();
this.screenCorners[i] =  new JU.P3();
}
}if (renderArrowHead) {
this.setBox(1.25, 0.333, pointBeforeEnd);
this.ptTip.scaleAdd2(-0.5, this.vH, ptEnd);
for (var i = 4; --i >= 0; ) {
var corner = this.corners[i];
corner.setT(this.ptC);
if ((i & 1) != 0) corner.add(this.vW);
if ((i & 2) != 0) corner.add(this.vH);
}
this.corners[4].setT(this.ptTip);
this.corners[5].add2(this.ptTip, this.vH);
this.renderPart(J.renderbio.RocketRenderer.arrowHeadFaces);
ptEnd = pointBeforeEnd;
}this.setBox(1, 0.25, ptStart);
this.vtemp.sub2(ptEnd, ptStart);
if (this.vtemp.lengthSquared() == 0) return;
this.buildBox(this.ptC, this.vW, this.vH, this.vtemp);
this.renderPart(J.renderbio.RocketRenderer.boxFaces);
}, "JU.P3,JU.P3,JU.P3,~B");
Clazz.defineMethod(c$, "setBox", 
function(w, h, pt){
(this.proteinstructurePending).setBox(w, h, pt, this.vW, this.vH, this.ptC, this.mad / 1000);
}, "~N,~N,JU.P3");
Clazz.defineMethod(c$, "buildBox", 
function(pointCorner, scaledWidthVector, scaledHeightVector, lengthVector){
for (var i = 8; --i >= 0; ) {
var corner = this.corners[i];
corner.setT(pointCorner);
if ((i & 1) != 0) corner.add(scaledWidthVector);
if ((i & 2) != 0) corner.add(scaledHeightVector);
if ((i & 4) != 0) corner.add(lengthVector);
}
}, "JU.P3,JU.V3,JU.V3,JU.V3");
Clazz.defineMethod(c$, "renderPart", 
function(planes){
if (this.rr.exportType == 1) {
if (this.meshSurface == null) {
this.meshSurface =  new JU.MeshSurface();
this.meshSurface.vs = this.corners;
this.meshSurface.haveQuads = true;
this.meshSurface.vc = this.corners.length;
}this.meshSurface.pis = planes;
this.meshSurface.pc = planes.length;
this.g3d.drawSurface(this.meshSurface, this.colix);
} else {
for (var i = 8; --i >= 0; ) this.tm.transformPt3f(this.corners[i], this.screenCorners[i]);

for (var i = planes.length; --i >= 0; ) {
var f = planes[i];
if (f.length == 3) this.g3d.fillTriangle3f(this.screenCorners[f[0]], this.screenCorners[f[1]], this.screenCorners[f[2]], true);
 else this.g3d.fillQuadrilateral(this.screenCorners[f[0]], this.screenCorners[f[1]], this.screenCorners[f[2]], this.screenCorners[f[3]], true);
}
}}, "~A");
c$.boxFaces =  Clazz.newArray(-1, [ Clazz.newIntArray(-1, [0, 1, 3, 2]),  Clazz.newIntArray(-1, [0, 2, 6, 4]),  Clazz.newIntArray(-1, [0, 4, 5, 1]),  Clazz.newIntArray(-1, [7, 5, 4, 6]),  Clazz.newIntArray(-1, [7, 6, 2, 3]),  Clazz.newIntArray(-1, [7, 3, 1, 5])]);
c$.arrowHeadFaces =  Clazz.newArray(-1, [ Clazz.newIntArray(-1, [1, 0, 4]),  Clazz.newIntArray(-1, [2, 3, 5]),  Clazz.newIntArray(-1, [0, 1, 3, 2]),  Clazz.newIntArray(-1, [2, 5, 4, 0]),  Clazz.newIntArray(-1, [1, 4, 5, 3])]);
});
;//5.0.1-v7 Mon Aug 17 10:07:10 MDT 2026
