[chimera-dev] Want to Convert PDB to VMRL?

[Calem Bendell]

Thanks!

Also, interesting bug (possibly bug): the obj file exports are rotated 180 as compared to the wrl files.  

-----Original Message-----
From: Elaine Meng [mailto:meng at cgl.ucsf.edu] 
Sent: Friday, August 10, 2012 1:10 PM
To: Calem Bendell
Cc: chimera-dev at cgl.ucsf.edu
Subject: Re: [chimera-dev] Want to Convert PDB to VMRL?

Hi Calem,
Chimera has an "export" command, see:
<http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/midas/export.html>

Note the OBJ export only includes surfaces.

The Chimera programmer's guide has some explanation of how to loop over multiple files:
<http://www.cgl.ucsf.edu/chimera/docs/ProgrammersGuide/basicPrimer.html>

First you would try entering commands directly into the Command Line to figure out what commands you want to use on each structure.  Then you would imbed those commands in a looping script.
Best,
Elaine
-----
Elaine C. Meng, Ph.D.                       
UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab Department of Pharmaceutical Chemistry University of California, San Francisco

On Aug 9, 2012, at 7:19 PM, Calem Bendell wrote:

> I'd like to convert PDB to VMRL and OBJ (for some reason hydrophobicity exports well as obj and ribbon as wrl, other than those file formats, I usually get file errors from Blender?) using Chimera via command-line call (doing them one by one will be a pain for several thousand pdb files!).
>  
> How would I do this?  Would I need to modify the Chimera source?  (if 
> necessary, I can do this, but it seems like it'd be pretty time 
> consuming)
>  
> Thank you guys!!!
>  
> --
> Calem Bendell
> Computer Science Dept McGill University Immunology and Microbiology 
> Dept McGill University
>  
> 438 881 9189
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