id	summary	reporter	owner	description	type	status	priority	milestone	component	version	resolution	keywords	cc	blockedby	blocking	notify_on_close	platform	project
789	Optimize atom radius lookup	Tom Goddard	Eric Pettersen	"Looking up atom radii values during graphics updates and when computing molecule bounds is slow because the radius is computed by a function that takes into account element type, bonds, and metal coordination.

In timing the Structure._atom_bounds() routine with 3j3q (2.4 million atoms) it takes about 85 msec to get the atom radii, more than 1/3 of the total time of 210 msec (includes coordinate lookup, and bounds calculation).  If a precomputed radius is used instead the lookup reduces to 1 msec.

This problem was encountered in ticket #778, changing coordinates every frame being slow for large structures in ISOLDE."	enhancement	closed	minor		Core		fixed		tic20@…				all	ChimeraX