Thank you so much for the info Elaine! I just have one more question. Is it possible to run the "mmaker" command without inputting chain IDs of the residues to be superimposed? I am asking this because I have a few PDB files whose residues lack chain ID information (I know this because when I hover my mouse over one of these residues, it shows something like: "/? PRO 190") I tried the command: mmaker #0/?:162-172@CA to #1/?:162-172@CA But it shows the error: *No molecules/chains to match specified* On Tue, Jun 27, 2023 at 9:46 PM Elaine Meng <meng@cgl.ucsf.edu> wrote:
Hi Prathvi, Both of these things are much easier/better in ChimeraX, since it has commands to do them. We are recommending everybody use ChimeraX if possible (if it has the features that they need).
In Chimera, the Reply Log has buttons to Clear and to Save, but there are no commands for those functions. If there were commands, it would be mentioned in the Reply Log help. <https://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/reply.html>
For saving only (not clearing), there are instructions of how to do it in python at the bottom of this page: <https://www.rbvi.ucsf.edu/chimera/docs/ProgrammersGuide/basicPrimer.html>
I hope this helps, Elaine ----- Elaine C. Meng, Ph.D. UCSF Chimera(X) team Department of Pharmaceutical Chemistry University of California, San Francisco
On Jun 27, 2023, at 4:21 AM, Prathvi Singh via Chimera-users < chimera-users@cgl.ucsf.edu> wrote:
Hi Elaine, Is there a way to clear the Reply Log using the command line? Is there a way to write the contents of the Reply log to a text file?
-- Prathvi Singh, Research Fellow, Department of Biological Sciences & Bioengineering, Indian Institute of Technology, Kanpur-208016
-- Prathvi Singh, Research Fellow, Department of Biological Sciences & Bioengineering, Indian Institute of Technology, Kanpur-208016