Hello Jared,
thanks for the conformation!!!
I am going to try it out today!
Floris
On 09-01-15 16:55, Sampson, Jared wrote:
Hi Floris -
Tsjerk is correct. You can set spec_reflect for a selection.
Something like:
set spec_reflect, 0, all and not organic
This would turn of specular reflection on anything that’s not a
“ligand” atom.
Cheers,
Jared
--
Jared Sampson
Xiangpeng Kong Lab
NYU Langone Medical Center
http://kong.med.nyu.edu/
On Jan 9, 2015, at 10:42 AM, Tsjerk Wassenaar <tsje...@gmail.com
<mailto:tsje...@gmail.com>> wrote:
Hi Floris,
I'm not entirely sure whether these are object/selection or global
properties. But have you tried specifying the selection?
set spec_reflect, 0, protein
Haven't tried it myself, though.
Cheers,
Tsjerk
On Jan 9, 2015 4:07 PM, "Floris van Eerden" <f.j.van.eer...@rug.nl
<mailto:f.j.van.eer...@rug.nl>> wrote:
Dear all,
My question is if I can set for different molecules in my system,
how much they reflect light during ray-tracing
My current system is a protein which contains some cofactors.
The cofactors are coloured according to their B value and the
protein is shown as a transparant grey surface.
When I start Ray-tracing, I get a quite nice picture. The problem
is however that the transparant surface is reflecting the light,
and becomes therefore at some places not transparant, which makes
it kinda difficult to see the cofactors in the protein (which are
the most important). I played around with all the spec_reflect,
spec_direct settings. When I set spec_reflect to 0, there are no
reflections anymore, but the image becomes rather dull.
I was wondering if it is possible to select somehow to make only
the cofactors inside the protein reflect the light, but not the
protein surface. In VMD you can do this for example by making
molecules from different ‘materials’, e.g. you can make your
cofactors from a reflective material, and your protein surface
from a non reflective, transparant material. Is something similar
possible in Pymol???
Thanks for your suggestions,
Floris
------------------------------------------------------------------------------
Dive into the World of Parallel Programming! The Go Parallel Website,
sponsored by Intel and developed in partnership with Slashdot
Media, is your
hub for all things parallel software development, from weekly thought
leadership blogs to news, videos, case studies, tutorials and
more. Take a
look and join the conversation now.
http://goparallel.sourceforge.net
<http://goparallel.sourceforge.net/>
_______________________________________________
PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net
<mailto:PyMOL-users@lists.sourceforge.net>)
Info Page:
https://lists.sourceforge.net/lists/listinfo/pymol-users
<https://lists.sourceforge.net/lists/listinfo/pymol-users>
Archives:
http://www.mail-archive.com/pymol-users@lists.sourceforge.net
------------------------------------------------------------------------------
Dive into the World of Parallel Programming! The Go Parallel Website,
sponsored by Intel and developed in partnership with Slashdot Media,
is your
hub for all things parallel software development, from weekly thought
leadership blogs to news, videos, case studies, tutorials and more.
Take a
look and join the conversation now.
http://goparallel.sourceforge.net_______________________________________________
PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net
<mailto:PyMOL-users@lists.sourceforge.net>)
Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users
Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net
------------------------------------------------------------------------------
New Year. New Location. New Benefits. New Data Center in Ashburn, VA.
GigeNET is offering a free month of service with a new server in Ashburn.
Choose from 2 high performing configs, both with 100TB of bandwidth.
Higher redundancy.Lower latency.Increased capacity.Completely compliant.
vanity: www.gigenet.com
_______________________________________________
PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net)
Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users
Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net
