/**
* Gets the parameters from this PickSegment.
*
* @param start the Point3d object into which the start point will be copied.
* @param end the Point3d object into which the end point will be copied.
*/
public void get(Point3d start, Point3d end) {
start.x = this.start.x;
start.y = this.start.y;
start.z = this.start.z;
end.x = this.end.x;
end.y = this.end.y;
end.z = this.end.z;
}
private Point3d getEffectiveCoordinates(IAtomContainer atomContainer, int[] atomIndices) {
Point3d ret = new Point3d(0, 0, 0);
for (int i : atomIndices) {
Point3d coord = atomContainer.getAtom(i).getPoint3d();
ret.x += coord.x;
ret.y += coord.y;
ret.z += coord.z;
}
ret.x /= atomIndices.length;
ret.y /= atomIndices.length;
ret.z /= atomIndices.length;
return ret;
}
private Point3d getEffectiveCoordinates(IAtomContainer atomContainer, List<Integer> atomIndices) {
Point3d ret = new Point3d(0, 0, 0);
for (Object atomIndice : atomIndices) {
int atomIndex = (Integer) atomIndice;
Point3d coord = atomContainer.getAtom(atomIndex).getPoint3d();
ret.x += coord.x;
ret.y += coord.y;
ret.z += coord.z;
}
ret.x /= atomIndices.size();
ret.y /= atomIndices.size();
ret.z /= atomIndices.size();
return ret;
}
public void move() {
Vector3d velocity = new Vector3d(cameraXP - cameraXN, 0, cameraZP - cameraZN);
velocity.normalize();
if (Double.isNaN(velocity.x)) {
velocity = new Vector3d();
}
position.add(velocity);
if (position.x < -maxX) {
position.x = -maxX;
} else if (position.x > maxX) {
position.x = maxX;
}
if (position.z < -maxZ) {
position.z = -maxZ;
} else if (position.z > maxZ) {
position.z = maxZ;
}
}
@Override
void update() {
int newEditId;
if ((newEditId = volume.update()) != volumeEditId) {
for (int i = 0; i < 6; i++) {
boxLine[i].setCoordinates(0, volume.facePoints[i], 0, 4);
boxLine[i].setCoordinate(4, volume.facePoints[i][0]);
imageQuad[i].setCoordinates(0, volume.facePoints[i], 0, 4);
}
faceCenter[PLUS_X].set(volume.maxCoord.x, 0.0, 0.0);
faceCenter[PLUS_Y].set(0.0, volume.maxCoord.y, 0.0);
faceCenter[PLUS_Z].set(0.0, 0.0, volume.maxCoord.z);
faceCenter[MINUS_X].set(volume.minCoord.x, 0.0, 0.0);
faceCenter[MINUS_Y].set(0.0, volume.minCoord.y, 0.0);
faceCenter[MINUS_Z].set(0.0, 0.0, volume.minCoord.z);
volCenter.x = (volume.maxCoord.x + volume.minCoord.x) / 2;
volCenter.y = (volume.maxCoord.y + volume.minCoord.y) / 2;
volCenter.z = (volume.maxCoord.z + volume.minCoord.z) / 2;
volumeEditId = newEditId;
}
eyePtChanged();
for (int i = 0; i < 6; i++) {
if (boxAttr[i].getValue() == true) {
boxSwitch[i].setWhichChild(Switch.CHILD_ALL);
} else {
boxSwitch[i].setWhichChild(Switch.CHILD_NONE);
}
String curImageFile = imageAttr[i].getValue();
if (curImageFile != imageFile[i]) {
imageFile[i] = curImageFile;
if (imageFile[i].length() > 0) {
try {
URL imageURL = new URL(context.getCodeBase().toString() + imageFile[i]);
imageTexture[i] = new TextureLoader(imageURL, null).getTexture();
} catch (Exception e) {
System.err.println("Error " + e + " loading image:" + imageFile[i] + ".");
}
}
imageAppearance[i].setTexture(imageTexture[i]);
if (imageTexture[i] != null) {
imageSwitch[i].setWhichChild(Switch.CHILD_ALL);
} else {
imageSwitch[i].setWhichChild(Switch.CHILD_NONE);
}
}
}
}
public static void transformMesh(final TopLoc_Location loc, double[] src, float[] dst) {
double[] matrix = new double[16];
loc.transformation().getValues(matrix);
Matrix4d m4d = new Matrix4d(matrix);
Point3d p3d = new Point3d();
for (int i = 0; i < src.length; i += 3) {
p3d.x = src[i + 0];
p3d.y = src[i + 1];
p3d.z = src[i + 2];
m4d.transform(p3d);
dst[i + 0] = (float) p3d.x;
dst[i + 1] = (float) p3d.y;
dst[i + 2] = (float) p3d.z;
}
}
/**
* Places the value of the "home" center around which the View rotates into the Point3d. The
* default center is (0, 0, 0).
*
* @param homeCenter The Point3d
* @since Version 1.1
*/
public void getHomeRotationCenter(Point3d homeCenter) {
homeCenter.x = homeRotCenter.x;
homeCenter.y = homeRotCenter.y;
homeCenter.z = homeRotCenter.z;
}
/**
* Procedure required by the CDOInterface. This function is only supposed to be called by the JCFL
* library
*/
public void setObjectProperty(String objectType, String propertyType, String propertyValue) {
logger.debug("objectType: " + objectType);
logger.debug("propType: " + propertyType);
logger.debug("property: " + propertyValue);
if (objectType == null) {
logger.error("Cannot add property for null object");
return;
}
if (propertyType == null) {
logger.error("Cannot add property for null property type");
return;
}
if (propertyValue == null) {
logger.warn("Will not add null property");
return;
}
if (objectType.equals("Molecule")) {
if (propertyType.equals("id")) {
currentMolecule.setID(propertyValue);
} else if (propertyType.equals("inchi")) {
currentMolecule.setProperty("iupac.nist.chemical.identifier", propertyValue);
}
} else if (objectType.equals("PseudoAtom")) {
if (propertyType.equals("label")) {
if (!(currentAtom instanceof IPseudoAtom)) {
currentAtom = builder.newPseudoAtom(currentAtom);
}
((IPseudoAtom) currentAtom).setLabel(propertyValue);
}
} else if (objectType.equals("Atom")) {
if (propertyType.equals("type")) {
if (propertyValue.equals("R") && !(currentAtom instanceof IPseudoAtom)) {
currentAtom = builder.newPseudoAtom(currentAtom);
}
currentAtom.setSymbol(propertyValue);
} else if (propertyType.equals("x2")) {
Point2d coord = currentAtom.getPoint2d();
if (coord == null) coord = new Point2d();
coord.x = Double.parseDouble(propertyValue);
currentAtom.setPoint2d(coord);
} else if (propertyType.equals("y2")) {
Point2d coord = currentAtom.getPoint2d();
if (coord == null) coord = new Point2d();
coord.y = Double.parseDouble(propertyValue);
currentAtom.setPoint2d(coord);
} else if (propertyType.equals("x3")) {
Point3d coord = currentAtom.getPoint3d();
if (coord == null) coord = new Point3d();
coord.x = Double.parseDouble(propertyValue);
currentAtom.setPoint3d(coord);
} else if (propertyType.equals("y3")) {
Point3d coord = currentAtom.getPoint3d();
if (coord == null) coord = new Point3d();
coord.y = Double.parseDouble(propertyValue);
currentAtom.setPoint3d(coord);
} else if (propertyType.equals("z3")) {
Point3d coord = currentAtom.getPoint3d();
if (coord == null) coord = new Point3d();
coord.z = Double.parseDouble(propertyValue);
currentAtom.setPoint3d(coord);
} else if (propertyType.equals("xFract")) {
Point3d coord = currentAtom.getFractionalPoint3d();
if (coord == null) coord = new Point3d();
coord.x = Double.parseDouble(propertyValue);
currentAtom.setFractionalPoint3d(coord);
} else if (propertyType.equals("yFract")) {
Point3d coord = currentAtom.getFractionalPoint3d();
if (coord == null) coord = new Point3d();
coord.y = Double.parseDouble(propertyValue);
currentAtom.setFractionalPoint3d(coord);
} else if (propertyType.equals("zFract")) {
Point3d coord = currentAtom.getFractionalPoint3d();
if (coord == null) coord = new Point3d();
coord.z = Double.parseDouble(propertyValue);
currentAtom.setFractionalPoint3d(coord);
} else if (propertyType.equals("formalCharge")) {
currentAtom.setFormalCharge(Integer.parseInt(propertyValue));
} else if (propertyType.equals("charge") || propertyType.equals("partialCharge")) {
currentAtom.setCharge(Double.parseDouble(propertyValue));
} else if (propertyType.equals("hydrogenCount")) {
currentAtom.setHydrogenCount(Integer.parseInt(propertyValue));
} else if (propertyType.equals("dictRef")) {
currentAtom.setProperty("org.openscience.cdk.dict", propertyValue);
} else if (propertyType.equals("atomicNumber")) {
currentAtom.setAtomicNumber(Integer.parseInt(propertyValue));
} else if (propertyType.equals("massNumber")) {
currentAtom.setMassNumber((int) Double.parseDouble(propertyValue));
} else if (propertyType.equals("id")) {
logger.debug("id: ", propertyValue);
currentAtom.setID(propertyValue);
atomEnumeration.put(propertyValue, numberOfAtoms);
}
} else if (objectType.equals("Bond")) {
if (propertyType.equals("atom1")) {
bond_a1 = Integer.parseInt(propertyValue);
} else if (propertyType.equals("atom2")) {
bond_a2 = Integer.parseInt(propertyValue);
} else if (propertyType.equals("id")) {
logger.debug("id: " + propertyValue);
bond_id = propertyValue;
} else if (propertyType.equals("order")) {
try {
Double order = Double.parseDouble(propertyValue);
if (order == 1.0) {
bond_order = IBond.Order.SINGLE;
} else if (order == 2.0) {
bond_order = IBond.Order.DOUBLE;
} else if (order == 3.0) {
bond_order = IBond.Order.TRIPLE;
} else if (order == 4.0) {
bond_order = IBond.Order.QUADRUPLE;
} else {
bond_order = IBond.Order.SINGLE;
}
} catch (Exception e) {
logger.error("Cannot convert to double: " + propertyValue);
bond_order = IBond.Order.SINGLE;
}
} else if (propertyType.equals("stereo")) {
if (propertyValue.equals("H")) {
bond_stereo = CDKConstants.STEREO_BOND_DOWN;
} else if (propertyValue.equals("W")) {
bond_stereo = CDKConstants.STEREO_BOND_UP;
}
}
}
logger.debug("Object property set...");
}
@Override
boolean intersect(
PickShape pickShape,
PickInfo pickInfo,
int flags,
Point3d iPnt,
GeometryRetained geom,
int geomIndex) {
Point3d pnts[] = new Point3d[4];
double sdist[] = new double[1];
double minDist = Double.MAX_VALUE;
double x = 0, y = 0, z = 0;
int[] vtxIndexArr = new int[4];
int i =
((vertexFormat & GeometryArray.BY_REFERENCE) == 0 ? initialVertexIndex : initialCoordIndex);
pnts[0] = new Point3d();
pnts[1] = new Point3d();
pnts[2] = new Point3d();
pnts[3] = new Point3d();
switch (pickShape.getPickType()) {
case PickShape.PICKRAY:
PickRay pickRay = (PickRay) pickShape;
while (i < validVertexCount) {
for (int j = 0; j < 4; j++) {
vtxIndexArr[j] = i;
getVertexData(i++, pnts[j]);
}
if (intersectRay(pnts, pickRay, sdist, iPnt)) {
if (flags == 0) {
return true;
}
if (sdist[0] < minDist) {
minDist = sdist[0];
x = iPnt.x;
y = iPnt.y;
z = iPnt.z;
if ((flags & PickInfo.CLOSEST_GEOM_INFO) != 0) {
storeInterestData(pickInfo, flags, geom, geomIndex, vtxIndexArr, iPnt, sdist[0]);
}
}
if ((flags & PickInfo.ALL_GEOM_INFO) != 0) {
storeInterestData(pickInfo, flags, geom, geomIndex, vtxIndexArr, iPnt, sdist[0]);
}
}
}
break;
case PickShape.PICKSEGMENT:
PickSegment pickSegment = (PickSegment) pickShape;
while (i < validVertexCount) {
for (int j = 0; j < 4; j++) {
vtxIndexArr[j] = i;
getVertexData(i++, pnts[j]);
}
if (intersectSegment(pnts, pickSegment.start, pickSegment.end, sdist, iPnt)) {
if (flags == 0) {
return true;
}
if (sdist[0] < minDist) {
minDist = sdist[0];
x = iPnt.x;
y = iPnt.y;
z = iPnt.z;
if ((flags & PickInfo.CLOSEST_GEOM_INFO) != 0) {
storeInterestData(pickInfo, flags, geom, geomIndex, vtxIndexArr, iPnt, sdist[0]);
}
}
if ((flags & PickInfo.ALL_GEOM_INFO) != 0) {
storeInterestData(pickInfo, flags, geom, geomIndex, vtxIndexArr, iPnt, sdist[0]);
}
}
}
break;
case PickShape.PICKBOUNDINGBOX:
BoundingBox bbox = (BoundingBox) ((PickBounds) pickShape).bounds;
while (i < validVertexCount) {
for (int j = 0; j < 4; j++) {
vtxIndexArr[j] = i;
getVertexData(i++, pnts[j]);
}
if (intersectBoundingBox(pnts, bbox, sdist, iPnt)) {
if (flags == 0) {
return true;
}
if (sdist[0] < minDist) {
minDist = sdist[0];
x = iPnt.x;
y = iPnt.y;
z = iPnt.z;
if ((flags & PickInfo.CLOSEST_GEOM_INFO) != 0) {
storeInterestData(pickInfo, flags, geom, geomIndex, vtxIndexArr, iPnt, sdist[0]);
}
}
if ((flags & PickInfo.ALL_GEOM_INFO) != 0) {
storeInterestData(pickInfo, flags, geom, geomIndex, vtxIndexArr, iPnt, sdist[0]);
}
}
}
break;
case PickShape.PICKBOUNDINGSPHERE:
BoundingSphere bsphere = (BoundingSphere) ((PickBounds) pickShape).bounds;
while (i < validVertexCount) {
for (int j = 0; j < 4; j++) {
vtxIndexArr[j] = i;
getVertexData(i++, pnts[j]);
}
if (intersectBoundingSphere(pnts, bsphere, sdist, iPnt)) {
if (flags == 0) {
return true;
}
if (sdist[0] < minDist) {
minDist = sdist[0];
x = iPnt.x;
y = iPnt.y;
z = iPnt.z;
if ((flags & PickInfo.CLOSEST_GEOM_INFO) != 0) {
storeInterestData(pickInfo, flags, geom, geomIndex, vtxIndexArr, iPnt, sdist[0]);
}
}
if ((flags & PickInfo.ALL_GEOM_INFO) != 0) {
storeInterestData(pickInfo, flags, geom, geomIndex, vtxIndexArr, iPnt, sdist[0]);
}
}
}
break;
case PickShape.PICKBOUNDINGPOLYTOPE:
BoundingPolytope bpolytope = (BoundingPolytope) ((PickBounds) pickShape).bounds;
while (i < validVertexCount) {
for (int j = 0; j < 4; j++) {
vtxIndexArr[j] = i;
getVertexData(i++, pnts[j]);
}
if (intersectBoundingPolytope(pnts, bpolytope, sdist, iPnt)) {
if (flags == 0) {
return true;
}
if (sdist[0] < minDist) {
minDist = sdist[0];
x = iPnt.x;
y = iPnt.y;
z = iPnt.z;
if ((flags & PickInfo.CLOSEST_GEOM_INFO) != 0) {
storeInterestData(pickInfo, flags, geom, geomIndex, vtxIndexArr, iPnt, sdist[0]);
}
}
if ((flags & PickInfo.ALL_GEOM_INFO) != 0) {
storeInterestData(pickInfo, flags, geom, geomIndex, vtxIndexArr, iPnt, sdist[0]);
}
}
}
break;
case PickShape.PICKCYLINDER:
PickCylinder pickCylinder = (PickCylinder) pickShape;
while (i < validVertexCount) {
for (int j = 0; j < 4; j++) {
vtxIndexArr[j] = i;
getVertexData(i++, pnts[j]);
}
if (intersectCylinder(pnts, pickCylinder, sdist, iPnt)) {
if (flags == 0) {
return true;
}
if (sdist[0] < minDist) {
minDist = sdist[0];
x = iPnt.x;
y = iPnt.y;
z = iPnt.z;
if ((flags & PickInfo.CLOSEST_GEOM_INFO) != 0) {
storeInterestData(pickInfo, flags, geom, geomIndex, vtxIndexArr, iPnt, sdist[0]);
}
}
if ((flags & PickInfo.ALL_GEOM_INFO) != 0) {
storeInterestData(pickInfo, flags, geom, geomIndex, vtxIndexArr, iPnt, sdist[0]);
}
}
}
break;
case PickShape.PICKCONE:
PickCone pickCone = (PickCone) pickShape;
while (i < validVertexCount) {
for (int j = 0; j < 4; j++) {
vtxIndexArr[j] = i;
getVertexData(i++, pnts[j]);
}
if (intersectCone(pnts, pickCone, sdist, iPnt)) {
if (flags == 0) {
return true;
}
if (sdist[0] < minDist) {
minDist = sdist[0];
x = iPnt.x;
y = iPnt.y;
z = iPnt.z;
if ((flags & PickInfo.CLOSEST_GEOM_INFO) != 0) {
storeInterestData(pickInfo, flags, geom, geomIndex, vtxIndexArr, iPnt, sdist[0]);
}
}
if ((flags & PickInfo.ALL_GEOM_INFO) != 0) {
storeInterestData(pickInfo, flags, geom, geomIndex, vtxIndexArr, iPnt, sdist[0]);
}
}
}
break;
case PickShape.PICKPOINT:
// Should not happen since API already check for this
throw new IllegalArgumentException(J3dI18N.getString("QuadArrayRetained0"));
default:
throw new RuntimeException("PickShape not supported for intersection ");
}
if (minDist < Double.MAX_VALUE) {
iPnt.x = x;
iPnt.y = y;
iPnt.z = z;
return true;
}
return false;
}
public Annotations(View view, Context context, Volume vol) {
super(view, context, vol);
viewPtAttr = (CoordAttr) context.getAttr("Vol Ref Pt");
perspectiveAttr = (ToggleAttr) context.getAttr("Perspective");
boxAttr[PLUS_X] = (ToggleAttr) context.getAttr("Plus X Box");
boxAttr[PLUS_Y] = (ToggleAttr) context.getAttr("Plus Y Box");
boxAttr[PLUS_Z] = (ToggleAttr) context.getAttr("Plus Z Box");
boxAttr[MINUS_X] = (ToggleAttr) context.getAttr("Minus X Box");
boxAttr[MINUS_Y] = (ToggleAttr) context.getAttr("Minus Y Box");
boxAttr[MINUS_Z] = (ToggleAttr) context.getAttr("Minus Z Box");
imageAttr[PLUS_X] = (StringAttr) context.getAttr("Plus X Image");
imageAttr[PLUS_Y] = (StringAttr) context.getAttr("Plus Y Image");
imageAttr[PLUS_Z] = (StringAttr) context.getAttr("Plus Z Image");
imageAttr[MINUS_X] = (StringAttr) context.getAttr("Minus X Image");
imageAttr[MINUS_Y] = (StringAttr) context.getAttr("Minus Y Image");
imageAttr[MINUS_Z] = (StringAttr) context.getAttr("Minus Z Image");
volume = vol;
frontRoot = new BranchGroup();
frontRoot.setCapability(BranchGroup.ALLOW_DETACH);
frontRoot.setCapability(Node.ALLOW_LOCAL_TO_VWORLD_READ);
backRoot = new BranchGroup();
backRoot.setCapability(BranchGroup.ALLOW_DETACH);
backRoot.setCapability(Node.ALLOW_LOCAL_TO_VWORLD_READ);
int stripLength[] = new int[1];
stripLength[0] = 5;
ColoringAttributes ca = new ColoringAttributes(1.0f, 0.0f, 0.0f, ColoringAttributes.SHADE_FLAT);
Appearance boxAppearance = new Appearance();
boxAppearance.setColoringAttributes(ca);
TexCoord2f[] texCoords = new TexCoord2f[4];
texCoords[0] = new TexCoord2f(0.0f, 0.0f);
texCoords[1] = new TexCoord2f(1.0f, 0.0f);
texCoords[2] = new TexCoord2f(1.0f, 1.0f);
texCoords[3] = new TexCoord2f(0.0f, 1.0f);
TransparencyAttributes ta = new TransparencyAttributes(TransparencyAttributes.BLENDED, 0.0f);
TextureAttributes texAttr = new TextureAttributes();
texAttr.setTextureMode(TextureAttributes.MODULATE);
PolygonAttributes pa = new PolygonAttributes();
pa.setCullFace(PolygonAttributes.CULL_NONE);
RenderingAttributes ra = new RenderingAttributes();
ra.setDepthBufferEnable(false);
for (int i = 0; i < 6; i++) {
faceGroup[i] = new SharedGroup();
frontAnnotations.addChild(new Link(faceGroup[i]));
backAnnotations.addChild(new Link(faceGroup[i]));
boxLine[i] = new LineStripArray(5, GeometryArray.COORDINATES, stripLength);
boxLine[i].setCoordinates(0, volume.facePoints[i], 0, 4);
boxLine[i].setCoordinate(4, volume.facePoints[i][0]);
boxLine[i].setCapability(GeometryArray.ALLOW_COORDINATE_WRITE);
Shape3D box = new Shape3D(boxLine[i], boxAppearance);
boxSwitch[i] = new Switch();
boxSwitch[i].setCapability(Switch.ALLOW_SWITCH_WRITE);
boxSwitch[i].addChild(box);
if (boxAttr[i].getValue() == true) {
boxSwitch[i].setWhichChild(Switch.CHILD_ALL);
} else {
boxSwitch[i].setWhichChild(Switch.CHILD_NONE);
}
faceGroup[i].addChild(boxSwitch[i]);
imageQuad[i] =
new QuadArray(4, GeometryArray.COORDINATES | GeometryArray.TEXTURE_COORDINATE_2);
imageQuad[i].setCapability(GeometryArray.ALLOW_COORDINATE_WRITE);
imageQuad[i].setCoordinates(0, volume.facePoints[i], 0, 4);
imageQuad[i].setTextureCoordinates(0, 0, texCoords, 0, 4);
imageAppearance[i] = new Appearance();
imageAppearance[i].setTransparencyAttributes(ta);
imageAppearance[i].setPolygonAttributes(pa);
imageAppearance[i].setRenderingAttributes(ra);
imageAppearance[i].setTextureAttributes(texAttr);
imageAppearance[i].setCapability(Appearance.ALLOW_TEXTURE_WRITE);
imageSwitch[i] = new Switch();
imageSwitch[i].setCapability(Switch.ALLOW_SWITCH_WRITE);
imageFile[i] = imageAttr[i].getValue();
if (imageFile[i].length() > 0) {
try {
URL imageURL = new URL(context.getCodeBase().toString() + imageFile[i]);
imageTexture[i] = new TextureLoader(imageURL, null).getTexture();
} catch (Exception e) {
System.err.println("Error " + e + " loading image:" + imageFile[i] + ".");
}
}
imageAppearance[i].setTexture(imageTexture[i]);
if (imageTexture[i] != null) {
imageSwitch[i].setWhichChild(Switch.CHILD_ALL);
} else {
imageSwitch[i].setWhichChild(Switch.CHILD_NONE);
}
Shape3D imageShape = new Shape3D(imageQuad[i], imageAppearance[i]);
imageSwitch[i].addChild(imageShape);
faceGroup[i].addChild(imageSwitch[i]);
}
frontAnnotations.setCapability(Switch.ALLOW_SWITCH_WRITE);
backAnnotations.setCapability(Switch.ALLOW_SWITCH_WRITE);
faceNormal[PLUS_X] = new Vector3d(1.0, 0.0, 0.0);
faceCenter[PLUS_X] = new Point3d(volume.maxCoord.x, 0.0, 0.0);
faceNormal[PLUS_Y] = new Vector3d(0.0, 1.0, 0.0);
faceCenter[PLUS_Y] = new Point3d(0.0, volume.maxCoord.y, 0.0);
faceNormal[PLUS_Z] = new Vector3d(0.0, 0.0, 1.0);
faceCenter[PLUS_Z] = new Point3d(0.0, 0.0, volume.maxCoord.z);
faceNormal[MINUS_X] = new Vector3d(-1.0, 0.0, 0.0);
faceCenter[MINUS_X] = new Point3d(volume.minCoord.x, 0.0, 0.0);
faceNormal[MINUS_Y] = new Vector3d(0.0, -1.0, 0.0);
faceCenter[MINUS_Y] = new Point3d(0.0, volume.minCoord.y, 0.0);
faceNormal[MINUS_Z] = new Vector3d(0.0, 0.0, -1.0);
faceCenter[MINUS_Z] = new Point3d(0.0, 0.0, volume.minCoord.z);
volCenter.x = (volume.maxCoord.x + volume.minCoord.x) / 2;
volCenter.y = (volume.maxCoord.y + volume.minCoord.y) / 2;
volCenter.z = (volume.maxCoord.z + volume.minCoord.z) / 2;
frontRoot.addChild(frontAnnotations);
backRoot.addChild(backAnnotations);
}
