I have a silicon bulk system. Pymol indicates that a handful of the atoms
are bonded to each other. Many bonds are not indicated. Is there some value
I can adjust that will make pymol indicate that more atoms are bonded? I
usually do this by setting some cutoff radius, but googling around has
yield
nect_cutoff in Å? There's also connect_mode
> (http://www.pymolwiki.org/index.php/Connect_mode).
>
> If you send me a copy of your file I can look at it.
>
> Cheers,
>
> -- Jason
>
> On Mon, Dec 3, 2012 at 4:03 PM, Rye Terrell
> wrote:
> > I have a silicon
> Cheers,
> > Rye
> >
> >
> > On Mon, Dec 3, 2012 at 4:34 PM, Jason Vertrees
> > wrote:
> >>
> >> Hi Rye,
> >>
> >> How about connect_cutoff in Å? There's also connect_mode
> >> (http://www.pymolwiki.org/index.php/Connec
11:43 AM, Rye Terrell wrote:
> Not sure what I was doing wrong before, but that worked like a charm!
> Thanks.
>
> Also, pyMol is really sweet. I've been bugging my group to use it for a
> few days now. :D
>
> Cheers,
> Rye
>
>
> On Tue, Dec 4, 2012
gt; Hi Rye,
>
> only "discrete" objects have per state bonding information. Try this:
>
> load multistate.pdb, discrete=1
>
> Hope that helps.
>
> Cheers,
> Thomas
>
> Rye Terrell wrote, On 12/05/12 18:20:
> > I'm loading a movie file now and it
