VMD-L Mailing List

From: Sabine Reisser (sabine.reisser_at_kit.edu)
Date: Fri Feb 15 2013 - 09:58:06 CST

Dear Axel,

thanks, that solved the problem with the disappearing molecule!

Cheers
Sabine

On 02/15/2013 04:43 PM, Axel Kohlmeyer wrote:
> On Fri, Feb 15, 2013 at 3:57 PM, Sabine Reisser <sabine.reisser_at_kit.edu> wrote:
>> Dear VMD users and developers,
> dear sabine,
>
>> I'm trying to generate a nice picture of a molecule (in licorice) within its
>> transparent electrostatic potential surface (surf, material diffuse). I'm
>> using the GLSL render mode, and the surface generally looks nice and smooth.
>> I've played with the opacity settings in tk console using
>> material change opacity Diffuse "..."
>> but the molecule inside the surface generally disappears when I take an
>> opacity value higher than 0.5. I can still see the surface and it's
>> transparent, but it's empty. This problem appears only in GLSL render mode.
>>
>> Also, the surface in GLSL mode looks stainy if the opacity is below 1
>> (independent of the material). I suppose this is because of light reflection
>> and shadows inside the molecule, but I would rather get rid of it.
>>
>> It would be great if somebody could comment on these issues.
> sounds like you would be better off using angle modulated transparency mode.
> there is a check button on the materials dialog for it.
> check out some of the images and movies here:
> https://sites.google.com/site/akohlmey/images-and-movies
>
> axel.
>
>
>> Thanks for reading!
>>
>> Cheers
>> Sabine
>>
>
>
> --
> Dr. Axel Kohlmeyer akohlmey_at_gmail.com http://goo.gl/1wk0
> International Centre for Theoretical Physics, Trieste. Italy.