Hi Nick,
This is something Robert Campbell alluded to a few days ago. To get
what you want, the "python block" and "mdo" are you friends:
# create an ala fragment and setup the view
frag ala
as sticks
orient
# 60-frame movie
mset 1x60
# start a Python block that fades out the fragment
python
for x in range(60):
cmd.mdo(x, "set_bond stick_transparency, %f, ala" % (x/60.))
python end
# play the movie
mplay
See:
* -- http://www.pymolwiki.org/index.php/Mdo
* -- http://www.pymolwiki.org/index.php/Python
Cheers,
-- Jason
On Fri, May 20, 2011 at 12:54 PM, Nicolas Bock <nic...@gm...> wrote:
> When I do the following
>
> hide all
> show sticks, all
> scene 001, store
>
> set_bond stick_transparency, 0.5, all
> scene 002, store
>
> scene 001
>
> the stick_transparency setting is not restored. I was hoping I could use
> scenes to slowly fade out a part of a molecule by adding several scenes
> with increasing stick_transparency values.
>
> Thanks, nick
>
>
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--
Jason Vertrees, PhD
PyMOL Product Manager
Schrodinger, LLC
(e) Jas...@sc...
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