Hi Daniel, You can effectively get rid of cartoon tethers by scaling them to zero, e.g.: cartoon tether scale 0 <https://rbvi.ucsf.edu/chimerax/docs/user/commands/cartoon.html#tether> As a side note, they are not pseudobonds: if they were pseudobonds you could use a hide command to undisplay them, e.g. hide targ p ...or use disclosure triangles in the Model Panel to see the pseudobond model listing and use the show/hide checkbox there. I hope this helps, Elaine
On Apr 11, 2024, at 8:13 AM, Elaine Meng via ChimeraX-users <chimerax-users@cgl.ucsf.edu> wrote:
Hi Daniel, Sorry, no ... silhouettes are a global setting, either all off or all on. Sometimes you can fiddle with the depthJump parameter, e.g. if you are getting too many contours on a surface, but I don't think that addresses the problem with mesh: <https://rbvi.ucsf.edu/chimerax/docs/user/commands/graphics.html#silhouettes>
See these previous posts on this topic, including some tips on possible alternatives: <https://mail.cgl.ucsf.edu/mailman/archives/list/chimerax-users@cgl.ucsf.edu/...> <https://mail.cgl.ucsf.edu/mailman/archives/list/chimerax-users@cgl.ucsf.edu/...> <https://mail.cgl.ucsf.edu/mailman/archives/list/chimerax-users@cgl.ucsf.edu/...>
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 Apr 11, 2024, at 12:12 AM, Daniel Larsson via ChimeraX-users <chimerax-users@cgl.ucsf.edu> wrote:
Hi all,
Is it possible to specifically hide silhouettes? The “graphics silhouettes” command unfortunately does not take a spec argument.
One example is to hide it for the mesh when you want to show the model and the map at the same time. Silhouettes around the mesh can make the scene look very cluttered. For this particular case, my colleague showed me a trick to use the selection command instead of “graphics silhouettes” and change the appearance of the selection, e.g. “graphics selection color black width 1”. But it gives slighly different apperance with far clip planes, where silhouettes are truncated while selections are enclosing clipped elements, removing some of the depth illusion from the mist.
Another scenario is for pseudobonds, e.g. when displaying cartoon and mainchain atoms at the same time using the trick with “cartoon suppress false; cartoon tether opacity 0” given in this thread https://mail.cgl.ucsf.edu/mailman/archives/list/chimerax-users@cgl.ucsf.edu/... I like to have the cartoon visible to guide the eye where the main chain goes, but I do not want the pseudo bonds to be visible since that adds clutter and is confusing. But the silhouettes command will outline the connections to the ribbon for the C3’ and C4’ atoms in nucleic acids.
Regards, Daniel