[PyMOL] Bond command not functioning in script

[Jason V. <jas...@gm...>]

Stuart,

I tried this in a script and at the command line and both worked 
flawlessly.  Without access to your script, this could be hard to 
debug--maybe it's a typo?

Here was my test script:

cmd.pseudoatom("temp", pos=[0,0,0], name="a")
cmd.pseudoatom("temp", pos=[0,0,5], name="b")
cmd.bond("temp////a", "temp////b")

What version of PyMOL do you use?

-- Jason

> [PyMOL] Bond command not functioning in script
> From: Stuart Ballard <srballard@wi...> - 2009-09-21 22:52
> 
> Attachments: Message as HTML     
> Hello all, Warren,
> 
> 
> I have a script which creates two pseudoatoms and a bond object between
> them, but the bond step consistently fails. However, the two pseudoatoms can
> be bound in the console after the script halts with the exact same command
> which fails in the script:
> 
> cmd.bond("temp0////A0","temp0////B0")
> 
> Alternatively, cmd.do("bond temp0////A0, temp0////B0") fails just the same.
> 
> The following works perfectly:
> PyMOL>python
> 1:cmd.pseudoatom("temp",pos[0,0,0],name="A")
> 2:cmd.pseudoatom("temp",pos[0,0,5],name="B")
> 3:cmd.bond("temp////A","temp////B")
> PyMOL>python end
> 
> So can anyone tell me why the *exact *same thing in a script halts after 2?
> 
> 
> Thanks,
> Stuart Ballard
> Dept. of Biochemistry
> University of Wisconsin-Madison 


-- Jason

-- 
Jason Vertrees, PhD
(e) Jas...@gm...

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