Hi Tsjerk --
What version of PyMOL does this work with? I've been trying your commands with
versions 1.1 and 1.2b and while PyMOL reports that the primitives have been
processed, nothing is written to the file "protein.pov" other than the header
info:
camera {orthographic location <0.0 , 0.0 , 134.1048736572>
look_at <0.0 , 0.0 , -1.0> right -74.9812240601*x up 59.9849815369*y}
#default { finish{phong -1.000 ambient 0.500 diffuse 0.450
phong_size 13
.750000}}
light_source{<4000.0001,4000.0001,9865.8951> rgb<1.0,1.0,1.0>}
plane{z , -206.0869
pigment{color rgb<1.0000,1.0000,1.0000>}
finish{phong 0 specular 0 diffuse 0 ambient 1.0}}
#include "povray.inc"
and povray.inc contains:
cmd.get_povray()[1]
If I save a povray file with the GUI menu selection: File> Save Image As>
POV-Ray
then I get everything written to disk. This occurs on both linux and Windows.
Am I missing something that would be more obvious if I had had more coffee
today?
Thanks!
-Tom
PS - There was a missing quotation mark:
open("povray.inc","w").write("cmd.get_povray()[1]) -->
open("povray.inc","w").write("cmd.get_povray()[1]")
-----Original Message-----
From: Tsjerk Wassenaar [mailto:tsje...@gmail.com]
Sent: Thu 5/14/2009 1:47 PM
To: Sean Law
Cc: pymol-users
Subject: Re: [PyMOL] POVRAY Usage
Hi Sean,
Unfortunately, getting a good image through POV-Ray requires editing
the POV-Ray file. You can write the scene to disk with the following
commands
pov=open("protein.pov","w")
pov.write(cmd.get_povray()[0])
pov.write("#include \"povray.inc\"")
pov.close()
open("povray.inc","w").write("cmd.get_povray()[1])
Then, take your favorite editor (under windows, you can use the
POV-Ray editor) and make some changes:
1. There's a line starting with #defaults. Remove that and replace it with:
#default {
finish {
ambient .15
diffuse .5
specular 1
roughness .001
reflection { .5 metallic } // Remove this line for less
glossyness and faster tracing
}
}
2. There's a light statement, which says:
light_source{<4000.0001,4000.0001,9960.0000> rgb<1.0,1.0,1.0>}.
Replace it with:
light_source
{
<20,10,0>
rgb 2
area_light <5,5,0>,5,5
adaptive 1
jitter
}
This usually works for me :)
Note that the trace may now take some time. Remove the metallic
reflection for faster tracing.
I hope it helps. POV-Ray is cool, but rather complicated.
Cheers,
Tsjerk
On Thu, May 14, 2009 at 10:21 PM, Sean Law <magic...@hotmail.com> wrote:
>
> Hi All,
>
> While ray tracing a scene with 10 x-large proteins in grid mode at 3600, 3600
> (width, height) I ran out of RAM (2 GB). I tried it again by writing
> everything into a script and using pymol -qc which still ran out of memory.
> I read somewhere that POVRAY is less of a memory hog so I installed the
> latest version and simply modified my script to "ray 3600, 3600, renderer=1"
> to use POVRAY. Everything went smoothly but I noticed that the image
> generated from POVRAY looked different than the native ray traced structure
> using PyMOL's ray tracer (simply invoking "ray" without dimensions in
> PyMOL). Specifically, the light reflections appeared to be dulled in POVRAY
> and spheres that were further away from the camera view are not
> distinguishable. I've posted a comparison on the PyMOLWiki:
>
> http://www.pymolwiki.org/index.php/Povray_vs._pymol
>
> Firstly, I apologize as I am completely new to the world of POVRAY and I just
> assumed that the image produced from either method would give identical/close
> results but I much prefer the look of the PyMOL ray-tracer. Is there an easy
> way to set everything up the same way as the PyMOL ray-tracer but for
> POVRAY? Thank you for your time.
>
> Sean
>
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--
Tsjerk A. Wassenaar, Ph.D.
Junior UD (post-doc)
Biomolecular NMR, Bijvoet Center
Utrecht University
Padualaan 8
3584 CH Utrecht
The Netherlands
P: +31-30-2539931
F: +31-30-2537623
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