From: Axel Kohlmeyer (
Date: Wed Aug 22 2007 - 13:33:03 CDT

On Wed, 22 Aug 2007, Jim Pfaendtner wrote:

hi jim,

i would suggest you create a matching saved state
to your liking, then edit the filename to be read
into a variable and then pass that filename as a
flag when calling VMD via -args. see.
and previous discussions about using -args to
pass arguments to scripts in the mailing list archives.


JP> Dear VMD-L,
JP> What is the best way to automate my preferred graphic representation
JP> of a protein? For example, if I am working on a particular system
JP> with 100 residues and I always like 1-25 to be in "new cartoon / blue
JP> ", 26-50 to be in "new cartoon / red" , etc. How should I go about
JP> doing this? Can changes to the representation be made via a TCL script?
JP> thank you,
JP> Jim

Axel Kohlmeyer
   Center for Molecular Modeling   --   University of Pennsylvania
Department of Chemistry, 231 S.34th Street, Philadelphia, PA 19104-6323
tel: 1-215-898-1582,  fax: 1-215-573-6233,  office-tel: 1-215-898-5425
If you make something idiot-proof, the universe creates a better idiot.