[Chimera-users] How to run a script in ChimeraX

[Shanti Pal Gangwar]

Hi Elaine,
Thank you very much for the reply. It works now. I figured that I was using
an incorrect filename. I should have used xxx.cxc.

Shanti Pal








On Wed, 30 Mar 2022 at 16:17, Elaine Meng <meng at cgl.ucsf.edu> wrote:

> Hi Shanti,
> Yes, you can run a script by simply opening the script file, as long as
> the commands or code in it are written correctly for that program. If you
> are trying to write a script with commands but you are not very experienced
> with the program, you should first test the commands interactively (by
> entering them into the command line) in the graphical user interface of the
> program to make sure they are correct.
>
> Some other tips
> - a command script should be a plain text file
> - Chimera and ChimeraX are two different programs; a script for one will
> not work in the other
> - make sure you have a reasonably new version of the program (P.S. there
> is also a chimerax-users at cgl.ucsf.edu mailing list if you want to ask
> specifically about ChimeraX)
> - if you want help when something doesn't work, you will need to describe
> exactly what you did and what happened, and possibly also include your
> structure data ... "does not work" is not enough information
>
> If Chimera, then you need Chimera commands.  Usually filename ends in .cmd
> or .com
> <https://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/framecommand.html>
> <
> https://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/indexcommand.html#cmdfile
> >
>
> If ChimeraX, then you need ChimeraX commands.  Usually filename ends in
> .cxc
> <https://rbvi.ucsf.edu/chimerax/docs/user/index.html#commands>
> <
> https://rbvi.ucsf.edu/chimerax/docs/user/commands/usageconventions.html#cxc-files
> >
>
> For either program, you could also write scripts in python code, or save
> and restore session files, but again, a script or session for Chimera would
> only work in Chimera, and one for ChimeraX would only work in ChimeraX.
>
> I hope this helps,
> Elaine
> -----
> Elaine C. Meng, Ph.D.
> UCSF Chimera(X) team
> Department of Pharmaceutical Chemistry
> University of California, San Francisco
>
> > On Mar 30, 2022, at 5:00 PM, Shanti Pal Gangwar via Chimera-users <
> chimera-users at cgl.ucsf.edu> wrote:
> >
> > Hi
> > I am trying to run a script in chimeraX but it did not work. I even
> downloaded the example files and that also did not work. I wonder if a
> script can be run in ChimeraX as we do in PyMol.
> > Any help would be appreciated.
> > Thank you
> > Shanti Pal
>
>
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