Oli, My OpenCommands plugin should be able to help with this. In the settings, you can create a list of commands (or Python code) that run when a model is opened. If needed, you can specify the commands only run for a particular file type (e.g. .pdb) or file name. To borrow from Elaine's answer, you can have it run the `preset` command when a model is opened. I know the boxes for typing in the commands can be a bit small, so it might be useful to just add them as a preset which then gets applied. OpenCommands can be installed from the toolshed. After installing the plugin, restart ChimeraX for the settings to be available. The toolshed page has a bit more info. Best, Tony On Fri, Sep 1, 2023 at 4:25 PM Elaine Meng via ChimeraX-users < chimerax-users@cgl.ucsf.edu> wrote:
Hi Oli, There aren't "New Molecules" preferences (like Chimera has) in ChimeraX currently, sorry. Maybe one of the programmers can advise on how to hard-wire it into the code.
For the non-programmers:
You can use "open" with "autoStyle false" to avoid the automatic styling of atomic structures, but then they just come up as white spheres.
Automatic styling rules: <https://rbvi.ucsf.edu/chimerax/docs/user/autostyle.html>
You can make a custom preset but you would still need to choose it from the menu or apply it via command in a separate step. So probably not any more convenient than making an alias and then using the alias.
Presets and user-defined presets: <https://rbvi.ucsf.edu/chimerax/docs/user/menu.html#presets> <https://rbvi.ucsf.edu/chimerax/docs/user/preferences.html#startup>
Aliases: <https://rbvi.ucsf.edu/chimerax/docs/user/commands/alias.html>
Cheers, Elaine ----- Elaine C. Meng, Ph.D. UCSF Chimera(X) team Department of Pharmaceutical Chemistry University of California, San Francisco
On Sep 1, 2023, at 3:15 PM, Oliver Clarke via ChimeraX-users < chimerax-users@cgl.ucsf.edu> wrote:
Hi,
Is there anyway to set default preferences for molecule display? Currently it seems to vary (I think?) based on the number of atoms in the model - so relatively small proteins will load as ribbons, while larger ones will load in sphere representation.
I would rather set a default such that all molecules load as ribbons, rainbow colored by chain. Is this possible?
Cheers Oli
_______________________________________________ ChimeraX-users mailing list -- chimerax-users@cgl.ucsf.edu To unsubscribe send an email to chimerax-users-leave@cgl.ucsf.edu Archives: https://mail.cgl.ucsf.edu/mailman/archives/list/chimerax-users@cgl.ucsf.edu/