[gmx-users] The octahedron problem

[Tsjerk Wassenaar]

Hi Tuong Vy,

No, it uses Pymol CGO to draw the cell. I think that won't work in VMD.

Cheers,

Tsjerk
On May 19, 2015 15:28, "Vy Phan" <phanvy120690 at gmail.com> wrote:

> Dear Tsjerk Wassenaar
> Can I display it on the VMD ?
> Thank a lot
> Tuong Vy
>
> 2015-05-19 20:22 GMT+09:00 Tsjerk Wassenaar <tsjerkw at gmail.com>:
>
> > Hi Tuong Vy,
> >
> > An octahedral or dodecahedral box is pretty tricky. I have a Pymol script
> > for generating them, but it will probably require some more work...
> >
> > Cheers,
> >
> > Tsjerk
> > On May 19, 2015 13:18, "Vy Phan" <phanvy120690 at gmail.com> wrote:
> >
> > > Dear Gromacs Users,
> > > I have the problem with generating the octahedron box.  I always get
> the
> > > rectangular box (using VMD)
> > > When I searched on the gmx maillist, I saw some people met same
> problem.
> > > Is problem is normal in gromacs?
> > >
> > > After run simulation, I can display the trajectory on VMD by using the
> > > command trjconv -pbc mol -ur compact for converting the system. But I
> can
> > > not display the octahedron box after solvated system.
> > >
> > > Could someone help me ?
> > >
> > > Tuong Vy
> > > --
> > > Gromacs Users mailing list
> > >
> > > * Please search the archive at
> > > http://www.gromacs.org/Support/Mailing_Lists/GMX-Users_List before
> > > posting!
> > >
> > > * Can't post? Read http://www.gromacs.org/Support/Mailing_Lists
> > >
> > > * For (un)subscribe requests visit
> > > https://maillist.sys.kth.se/mailman/listinfo/gromacs.org_gmx-users or
> > > send a mail to gmx-users-request at gromacs.org.
> > >
> > --
> > Gromacs Users mailing list
> >
> > * Please search the archive at
> > http://www.gromacs.org/Support/Mailing_Lists/GMX-Users_List before
> > posting!
> >
> > * Can't post? Read http://www.gromacs.org/Support/Mailing_Lists
> >
> > * For (un)subscribe requests visit
> > https://maillist.sys.kth.se/mailman/listinfo/gromacs.org_gmx-users or
> > send a mail to gmx-users-request at gromacs.org.
> >
> --
> Gromacs Users mailing list
>
> * Please search the archive at
> http://www.gromacs.org/Support/Mailing_Lists/GMX-Users_List before
> posting!
>
> * Can't post? Read http://www.gromacs.org/Support/Mailing_Lists
>
> * For (un)subscribe requests visit
> https://maillist.sys.kth.se/mailman/listinfo/gromacs.org_gmx-users or
> send a mail to gmx-users-request at gromacs.org.
>