Maybe you are confusing two different programs: Chimera and ChimeraX. Each of those two programs has continuity of nearly all features, and we maintain backwards compatibility with its command syntax, but ONLY if you keep using the same program. Maybe you were using Chimera before and now you tried ChimeraX by mistake? Chimera still has the "Icosahedron Surface" tool, command "shape icosahedron" etc. For the two different programs, there are also two different websites, two different User Guides, two different email addresses for questions etc. Make sure you know what program you are using. <https://www.rbvi.ucsf.edu/chimerax/index.html> <https://www.rbvi.ucsf.edu/chimera/> Regards, 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 19, 2026, at 9:13 PM, Anindya Karmaker via ChimeraX-users <chimerax-users@cgl.ucsf.edu> wrote:
Hello, I am a final year grad student at UCD and among many of my passions and recently acquired skills molecular biology/simulation is one of them. I have been using ChimeraX for some time now to learn and have used it extensively as well. But with every changing version I find wide gaps between functions.In the recent version 1.11.1 some commonly used functions like icoshedral have been completely removed and syntax changed. I develop applications for fun and utility as well and I understand that change is necessary. But you also have to understand backward compatibility. You simply cannot remove a function and expect people will adapt to it. Please do not remove syntax and backward compatibility. I understand that you may or may not be using AI to improve the application but one thing I found is that AI will hallucinate and will try to make changes or rewrite unnecessary code to prove its superiority which sometimes just removes backward compatibility. I would really appreciat! e it if you would understand my frustration. Just my two cents. Thank you.
Sincerely, Anindya Karmaker ______________________________________ PhD Candidate, Chemical Engineering, UC Davis McDonald-Nandi Lab Email: akarmaker@ucdavis.edu Mobile: +1-530-760-8681, +880 1776929828 LinkedIn: _______________________________________________ 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/