[Chimera-users] Chimera pov-tracing question

maya shcushan minimayas at gmail.com
Wed Oct 7 12:35:28 PDT 2009

Dear Tom,

Thanks for your great help. I made my image without ray tracing, it is
indeed nice too. But not as nice as ray-tracing..  J





From: Tom Goddard [mailto:goddard at cgl.ucsf.edu] 
Sent: Wednesday, October 07, 2009 7:44 PM
To: maya shcushan
Cc: 'Chimera BB'
Subject: Re: Chimera pov-tracing question


Hi Maya,

  Your mesh is transparent in the povray image (zoom in on the image and
look at the mesh lines) but I guess is much less transparent than in the
Chimera window.  I ran some test images with the current Chimera 1.4 daily
build which also showed the povray mesh looked much different (darker,
thicker and less transparent) than in the Chimera window.  While we have
improved the match between povray images and what you see in the Chimera
window it is still very bad.  Dozens of messages on the chimera-users
mailing list relate to the poor quality of Chimera Povray images. 


As suggested in the following message, with these poor quality povray
results a better presentation can almost always be obtained by not using


Attached are 5 test images showing some of the problems. 1mwm chain A,
molmap 6 angstroms.

test.png - povray transparent mesh 0.24, appears very dark
test2.png - povray transparent mesh 0.04, black specks all over the mesh
test4.png - povray transparent surface 0.24, ugly multilayer mosaic
test5.png - no povray, transparent surf 0.24, glossy lighting, silhouette
test6.png - no povray, same as test5 but mesh.


-------- Original Message --------
Subject: Chimera pov-tracing question
From: maya shcushan
To: 'Thomas Goddard'
Date: 10/7/09 9:59 AM

Dear Dr Goddard,


You previously assisted me with other problems with Chimera, so now I am
asking your help again.

I have a density map and a structure mapped on it. I showed the map as
transparent mesh, and tried to pov-ray the image. However, the picture came
up with the map not transparent (attached). Do you have any idea how to
resolve this issue, making the map transparent in the image as it is in the
main window




Maya Schushan

Department of Biochemistry

George S. Wise Faculty of Life Sciences
Tel Aviv University


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