Hi Gourav,
I forgot to mention:

If you would rather not create a command file, you can record a very simple movie of the trajectory playback with the "record" (red dot) button on the slider graphical interface that automatically appears when you open the trajectory.  The slider interface is described here:

<https://rbvi.ucsf.edu/chimerax/docs/user/commands/coordset.html#slider>

The command-file approach is for when you want to do fancier things like rotations and changes in appearance, and have labels appear and disappear.

I hope this helps,
Elaine

> On Feb 5, 2025, at 8:48 AM, Elaine Meng via ChimeraX-users <chimerax-users@cgl.ucsf.edu> wrote:
>
> Hi Gourav,
> ChimeraX does not read the .parm7 topology file.  Instead you need to open a PDB file (like one snapshot from the trajectory) which provides the topology, and then you can open the .nc file with the "open" command as described here.
>
> <https://rbvi.ucsf.edu/chimerax/docs/user/commands/open.html#traj-options>
> <https://rbvi.ucsf.edu/chimerax/docs/user/trajectories.html>
>
> Playback of the trajectory is with the "coordset" command.
> <https://rbvi.ucsf.edu/chimerax/docs/user/commands/coordset.html>
>
> You can put the coordset command and other commands (coloring, style, hide/show, zoom, rotations etc.) into a ChimeraX command script .cxc file, and it can include "movie" commands to start recording, encode the movie, etc.   See "making movies"
> <https://rbvi.ucsf.edu/chimerax/docs/user/movies.html>
>
> I hope this helps,
> Elaine
> -----
> Elaine C. Meng, Ph.D.                       
> UCSF Chimera(X) team
> Resource for Biocomputing, Visualization, and Informatics
> Department of Pharmaceutical Chemistry
> University of California, San Francisco
>
>
>> On Feb 4, 2025, at 11:24 PM, Gourav Das via ChimeraX-users <chimerax-users@cgl.ucsf.edu> wrote:
>>
>> Dear ChimeraX users,
>>
>> I have performed MD simulation of a system using AMBER20. The topology and trajectory files are in .parm7 and .nc formats, respectively. I would appreciate your guidance on visualizing and recording the trajectory as a movie in ChimeraX.
>>
>> Thank you for your support.
>>
>> With regards,
>>
>> Gourav Das
>> Research Scholar
>> Department of Chemistry
>> Indian Institute of Technology Kharagpur
>> West Bengal, India-721302
>> Mob: +91-6295251060--
>
>
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