Hi Jordan,

If ray_trace_frames is on, and ray_opaque_background is off then
during the moviemaking process PyMOL uses the background color in the
movie.

At present, I think your only workaround is to export the PNGs with
transparencies and use a professional-quality movie exporter, like
Adobe Premier Pro (or similar).

Cheers,

-- Jason



On Tue, Jul 23, 2013 at 7:23 PM, Jordan Willis <jwillis0...@gmail.com> wrote:
> Hello,
>
> I'm using MacPymol 1.5.0.4
>
> When I save a ray traced .PNG file with set ray_opaque_background, 0 It does 
> gives me a transparent background when I put the picture into other apps, 
> e.g. Powerpoint. However, when I save it as a .mov file, I can see that pymol 
> is trying for a transparent background (I can see each frame as a 
> checkerboard), but the finished product is a solid black background that 
> looks terrible. Has anyone encountered this problem and have a possible 
> solution or workaround?
>
> Jordan
>
>
>
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-- 
Jason Vertrees, PhD
Director of Core Modeling Products
Schrödinger, Inc.

(e) jason.vertr...@schrodinger.com
(o) +1 (603) 374-7120

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