id	summary	reporter	owner	description	type	status	priority	milestone	component	version	resolution	keywords	cc	blockedby	blocking	notify_on_close	platform	project
930	IHM crosslink models under the restraint group model are surprisingly not pseudobond groups	Elaine Meng	Tom Goddard	"Using ""crosslinks histogram"" with restraints model number gave ""no pseudobonds specified"" message when used on IHM model.

For example, I downloaded https://pdb-dev.wwpdb.org/static/cif/PDBDEV_00000005.cif
changed name to end in .ihm, opened it in ChimeraX, and then tried command:

crosslinks histogram #1.1.2
No pseudobonds specified. 

Model #1.1.2 was a submodel ""99 predicted contacts"" under Restraints model #1.1.  Unchecking the Shown box for #1.1.2 confirmed it is a pbond model. Strangely, unchecking the Shown box for #1.1 did not hide its submodels.

At first I thought the command was failing to recognize pseudobond model number (as opposed to endpoint atomspec) but ""crosslinks histogram"" worked with both types of spec when applied to hbonds calculated for 1gcn.

I'd initially tried it on a previously downloaded Nup IHM that I'd used before successfully with the command, but when that didn't work, decided to try new IHM from PDB Dev to make sure it wasn't just a stale format problem."	enhancement	assigned	major		Structure Analysis								all	ChimeraX