Hi Joseph, Yes, there is a “single-layer” transparency setting (on by default) to show only the topmost of multiple transparent layers. You can control it in the Effects tool or with a command, e.g. ~set singlelayer <http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/midas/set.html#singlelayer> … to turn it off. Note multiple transparent layers can add visual complexity and make a structure harder to understand, and sometimes Chimera has problems in rendering them correctly. That’s not to say you might not want them sometimes, just be aware of the potential issues! I hope this helps, Elaine ----- Elaine C. Meng, Ph.D. UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab Department of Pharmaceutical Chemistry University of California, San Francisco On Jul 16, 2014, at 2:13 AM, Joseph Atherton <j.atherton@mail.cryst.bbk.ac.uk> wrote:
Hi!
I'm trying to make videos at the moment but I have a problem with layering, as in the model seems to be 'hiding' behind the density even when the density is transparent. This occurs when I set transparency also in the model, even at low transparency (e.g command #19:transparency 5,a,r #0:259-271). See the example attached- the left hand most part of the model, and the ADP is hidden when their transparency is non-zero. Can I prevent this?
Cheers, Joe <morph_kin3_ADP_release_trial.mp4>_______________________________________________ Chimera-users mailing list Chimera-users@cgl.ucsf.edu http://plato.cgl.ucsf.edu/mailman/listinfo/chimera-users