private void drawSegment(Atom atomA, Atom atomB, short colixA, short colixB, float max) {
if (atomA.getNBackbonesDisplayed() == 0
|| atomB.getNBackbonesDisplayed() == 0
|| ms.isAtomHidden(atomB.i)
|| !isDataFrame && atomA.distanceSquared(atomB) > max) return;
colixA = C.getColixInherited(colixA, atomA.colixAtom);
colixB = C.getColixInherited(colixB, atomB.colixAtom);
if (!isExport && !isPass2 && !setBioColix(colixA) && !setBioColix(colixB)) return;
int xA = atomA.sX, yA = atomA.sY, zA = atomA.sZ;
int xB = atomB.sX, yB = atomB.sY, zB = atomB.sZ;
int mad = this.mad;
if (max == 1000) mad = mad >> 1;
if (mad < 0) {
g3d.drawLine(colixA, colixB, xA, yA, zA, xB, yB, zB);
} else {
int width =
(int)
(exportType == GData.EXPORT_CARTESIAN
? mad
: vwr.tm.scaleToScreen((zA + zB) / 2, mad));
g3d.fillCylinderXYZ(colixA, colixB, GData.ENDCAPS_SPHERICAL, width, xA, yA, zA, xB, yB, zB);
}
}
short getColix2() {
return C.getColixInherited(colix, atom2.colixAtom);
}
protected short getLeadColix(int i) {
return C.getColixInherited(colixes[i], monomers[i].getLeadAtom().colixAtom);
}
short getColix1() {
return C.getColixInherited(colix, atom1.colixAtom);
}