VMD-L Mailing List

From: Ivan Degtyarenko (imd_at_fyslab.hut.fi)
Date: Wed Aug 16 2006 - 15:34:35 CDT

Dear All,

did anybody see this kind of problem? I'm trying to plot high quality
figure of the hydrated molecule. It's inside the water shell, thus I'm
making the molecule itself opaque and the water around is transparent VDW
surface. The basic snapshot is coming fine:
http://www.fyslab.hut.fi/~imd/vmd/alanine_in_water.snapshot.jpeg

but rendering does it wrong, it's drawing every single atom surface:
http://www.fyslab.hut.fi/~imd/vmd/alanine_in_water.pov3.jpeg
http://www.fyslab.hut.fi/~imd/vmd/alanine_in_water.tachyon.jpeg

I'm using standard VMD settings for rendering and visualization. The
initial file is a plain XYZ
http://www.fyslab.hut.fi/~imd/vmd/alanine_in_water.xyz

My platform is Linux SuSE 9.3, videocard ATI Radeon 9800 Pro.

Thanks in advance for any reply!

YT, Ivan Degtyarenko