> Does anyone know of a way to embed coordinates within a pymol script?
Have you seen cmd.read_pdbstr() and its companion cmd.get_pdbstr()?
> I'd like to be able to programmatically generate a self-contained pymol
> script which loads the embedded coords, defines selections, and
> highlights selections with colors/rendering. The immediate use for this
> is to write a CGI which returns a pymol script over http. Thus, the
> coordinates cannot be expected to exist on the client side (and, in my
> case, are model coordinates, not a PDB entry).
> RasMol provides the 'load pdb inline' command which loads a PDB file
> which appears at the end of the script. I'd like something similar for
> PyMOL, preferably generalized to multiple structures. An extension to
> load in which the filename could be '<<TAG' a la sh or perl (gasps heard
> on the list) would do the trick.
> Reece Hart, Ph.D. rkh@..., http://www.gene.com/
> Genentech, Inc. 650-225-6133 (voice), -5389 (fax)
> Bioinformatics and Protein Engineering
> 1 DNA Way, MS-93 http://www.in-machina.com/~reece/
> S. San Francisco, CA 94080-4990 reece@..., GPG: 0x25EC91A0