Hi CreativeRaul,
I do not have these plug ins, so anything I can tell, is based on a scene without those. See image.
The unwanted effect seems to be driven by the AtomArray, and there by the sphere components. There is no option to set them smaller than the tubes, such as set them to zero. So, this need an alternative.
The simplest, but not the best, is to “MaxUV” and apply a texture in that way to each polygon. In the scene it is called Alternative, and switched off, as it becomes weak, if the polygons are tangential to the camera or to something reflective in such a way.
The way I would do it, is to use the Connect Object, to get the PolyFX of the Polygons as “Object [matrix]” into a Cloner and scale an object to 100% along the edges. In teh moment teh edge is 0% long based on teh PolyFX, the edge based on the Cloner will be invisible.
Have a look into the file.
All the best
Sassi