Re: [PyMOL] Slow or not loading pdb file

[Jason V. <jas...@sc...>]

Hi Adrie,

Try,

set auto_defer_atom_count, 26

Cheers,

-- Jason

On Tue, Aug 23, 2011 at 11:30 AM, Westphal, Adrie <Adr...@wu...> wrote:
> Hi folks,
>
> I have a (small) problem loading a hand made pdb file on an Apple computer (OSX 10.6.8)  running  Pymol 1.4.
> The pdb file involved just has a row of 27 atoms separated in X-direction by 0.5 A. The loading takes about 30 seconds and the CPU's are in use almost 100 % during this time. When this row contains more than 27 atoms, Pymol "hangs" upon loading the pdb file (force quit required).
> If I change the spacing to 1.0 A between the atoms, loading is as fast as it is for real protein structures and more atoms are no problem. Upon loading the same 0.5 A distance file in Pymol 1.3 however, I have no problems at all.
> Bug?
>
> I attached the 0.5 A  and 1.0 A pdb files.
>
> Cheers,
>
> Adrie.
>
> Adrie Westphal
> Dept. of Biochemistry
> Wageningen University
> The Netherlands
>
>
>
>
> ------------------------------------------------------------------------------
> Get a FREE DOWNLOAD! and learn more about uberSVN rich system,
> user administration capabilities and model configuration. Take
> the hassle out of deploying and managing Subversion and the
> tools developers use with it. http://p.sf.net/sfu/wandisco-d2d-2
>
> _______________________________________________
> PyMOL-users mailing list (PyM...@li...)
> Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users
> Archives: http://www.mail-archive.com/pym...@li...
>



-- 
Jason Vertrees, PhD
PyMOL Product Manager
Schrodinger, LLC

(e) Jas...@sc...
(o) +1 (603) 374-7120