[Chimera-users] segname

[Eric Pettersen]

Hmm, Chimera was being a bit of stickler in that it wasn't reading the columns that included the segment ID unless the ATOM records had a full 80 characters.  The ATOM records in your file are a little shorter (78 characters).  I have modified the Chimera code to be a little more flexible in that regard.  If you get tonight's daily build, it will process the segment IDs in your file.  Look for builds dated April 1 or later.

--Eric

On Apr 1, 2015, at 8:27 AM, Francesco Pietra <chiendarret at gmail.com> wrote:

> Hi Eric:
> If I did correctly, it does not work.
> 
> Attached is a pdb file from work that I recently published. If relevant, I could also provide psf/dcd. In fact, my main interest is in describing the MD trajectory with chimera/centroid, while highlighting in different colors the various chains and residues of particular interest
> 
> Thanks a lot for your interest
> 
> francesco
> 
> define centroid 
> 
> 
> 
> On Mon, Mar 30, 2015 at 11:32 PM, Eric Pettersen <pett at cgl.ucsf.edu> wrote:
> Hi Francesco,
> 	It should be available as the atom attribute pdbSegment, e.g. "color red @/pdbSegment=XY2".  If that doesn't work, please let me know and attach a PDB file with segment info in it that I can use for testing.
> 
> --Eric
> 
>                         Eric Pettersen
>                         UCSF Computer Graphics Lab
>                         http://www.cgl.ucsf.edu
> 
> On Mar 28, 2015, at 6:34 AM, Francesco Pietra <chiendarret at gmail.com> wrote:
> 
>> Hello:
>> 
>> May I ask whether there is till a problem in having CHIMERA understanding segname? For those working with XPLOR (NAMD, for example) and multichain proteins, rendering results with CHIMERA becomes very tedious (having to use atom indexes)
>> 
>> Thanks
>> francesco pietra
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> 
> 
> 
> 
> 
> <miniSOG_O2_box_ion.pdb>

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