[Chimera-users] Attribute Error: 'AtomType' object has no attribute 'amber_atom_type'

[Eric Pettersen]

Actually, just accidentally noticed a similar reported problem in our bug database.  It can happen if you assign non-unique names to atoms in a residue (e.g. multiple hydrogens in a residue just named 'H').  If this sounds like it could be your problem, download the daily build and use that.

If you had used Help->Report A Bug to report the problem, I would have noticed this sooner. ;-)

--Eric

On Jun 22, 2015, at 12:44 PM, Eric Pettersen <pett at cgl.ucsf.EDU> wrote:

> Hi Karl,
> 	We have not encountered this behavior.  Do you have a session or PDB file where this happens reliably for you?  If so,  could you use Chimera's Help->Report A Bug and attach the file?  I can keep the data private if that's an issue.
> 
> --Eric
> 
>                         Eric Pettersen
>                         UCSF Computer Graphics Lab
>                         http://www.cgl.ucsf.edu
> 
> On Jun 19, 2015, at 3:32 PM, Karl Sebby <karl.sebby at leftsideresearch.com> wrote:
> 
>> Hi
>> I am modifying several ligand/protein complexes; usually with the “Build Structures” tool. I modify ligands by changing and deleting atoms, or by using “Join Models” after building or importing a structure with “Start structure”. Sometimes, minimizing the ligand works fine, but other times I get the error: “Attribute Error: ‘AtomType’ object has no attribute ‘amber_atom_type’”. I cannot figure out what is causing this error or how to fix it. It seems to happen when I begin working from a saved session or a pdb that was written with the ‘write’ command and not when I go through a whole series of steps in one shot. Any ideas on what is going on? Thanks,
>> All the best,
>> Karl
>> --
>> Dr Karl Sebby
>> 
>> Left Side Research LLC
>> 1661 K M Ranch Road
>> Whitefish Montana 59937
>> Office: 406 623 4773
>> 
>> 
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