[gmx-users] Did this MD simulation run correctly? If so, how do I visualize it nicely?

[Mark Abraham]

Trjconv will do the same. The .gro format can be abused to contain a
trajectory, which can be of length one.

Mark
On 23/03/2015 8:32 pm, "Jonathan Saboury" <jsabou1 at gmail.com> wrote:

> Thank you Justin, "trjconv -pbc mol -center" is exactly what I needed.
>
> One problem though, I visualize with vmd so I use the initial .gro file for
> coordinates and .xtc files for trajectories.
>
> The problem is the initial .gro files are not centred/whole. How would I
> get the initial coordinates centred/whole as well?
>
> Thank you!
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