id	summary	reporter	owner	description	type	status	priority	milestone	component	version	resolution	keywords	cc	blockedby	blocking	notify_on_close	platform	project
481	struts ignoring pbonds and accumulating inappropriately	Elaine Meng	Tom Goddard	"The ""struts"" command calculation is not paying attention to displayed pseudobonds, and besides that, seems to be generating far too many struts in subsequent rounds of calculations even when I close the struts model in between.  

In Chimera,
open 1zik; struts @ca
...gives 8 struts, and behaves as expected after I add two pseudobonds, e.g.
close 1; dist :12@ca; dist :19@ca; struts @ca
...gives 6 struts.

In ChimeraX,
open 1zik; struts @ca
...gives 9 struts (that discrepancy doesn't bother me, the later stuff does), but after adding two pseudobonds (file attached)
close #2; open ~/Desktop struts-test.pb; struts @ca
...gives 40 struts.  Thinking maybe my pb file added atoms, I then tried
close #3; struts #1@ca
...but that gives 63 struts!

If I start over completely and open the pb file before any struts calculation, it does not pay attention to them and still gives 9 struts:
open 1zik; open ~/Desktop struts-test.pb; struts @ca"	defect	closed	major		Depiction		fixed						all	ChimeraX