[Chimera-users] "ligand" category for selection

[Tom Goddard]

Hi Darrell,

  I’m not sure what Python code you are using that produces the “No atoms specified” error.  Probably you are running a Chimera command.  You can catch that error in Python and ignore it with code like

	from Commands import CommandError
	try:
	   # Your ligand selection code here
	except CommandError:
	    pass  # Got an error, ignore it

   Tom


On Jun 5, 2014, at 9:41 AM, Hurt, Darrell (NIH/NIAID) [E] <darrellh at niaid.nih.gov> wrote:

> Hi Chimera friends,
> 
> I'm trying to use the attached MOL file (dopamine) in Chimera and I want to run a Python script on it. My script does some things to the molecule using selection categories. I'm trying to select this molecule as "ligand", but I get a "No atoms specified" error.
> 
> Alternatively, is there a way in Python to ignore the error if I get it and keep processing the rest of the script?
> 
> Thanks,
> Darrell
> 
> --
> Darrell Hurt, Ph.D.
> Section Head, Computational Biology
> Bioinformatics and Computational Biosciences Branch (BCBB)
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