21:25:09drmeisterThe molecule coming up from the bottom has atoms that get really close to the atoms in the octree. The green ball is the atom coming from the bottom that has a collision with an atom in the octree.
21:26:44drmeisterWith interactive Common Lisp running in jupyterlab and nglview I can debug this shit because I can visualize everything.
21:27:16drmeisterI should get a livestream - I'm doing some awesome stuff here.
21:30:37drmeisterTo quote the fictional character Mark Whatney - "[I'm] sciencing the shit out of this"
21:40:12Shinmeraoctrees are O(logn) in the best case, but it can degenerate to O(n) if it's bounded and degenerate.