Hi Dmitry, You could create a copy of the map but only a region using "volume copy" with the "subregion" option to specify grid index ranges: <https://rbvi.ucsf.edu/chimerax/docs/user/commands/volume.html#copy> Or, to save a map file with the smaller region, the "save" command allows specifying the map "region" by grid index ranges: <https://rbvi.ucsf.edu/chimerax/docs/user/commands/save.html#map> (The current documentation also suggests you could also use a name for the region instead of the ranges, but I suspect that it is incorrect, so disregard that part.) If you are using the "crop" mouse mode to interactively crop the map box, look in the Log: it will show a "volume" command with the "region" giving the indices you could use in the "volume copy" or "save" command. <https://rbvi.ucsf.edu/chimerax/docs/user/commands/volume.html#dimensions> I hope this helps, Elaine ----- Elaine C. Meng, Ph.D. UCSF Chimera(X) team Department of Pharmaceutical Chemistry University of California, San Francisco
On Oct 25, 2023, at 8:47 AM, Dmitry Semchonok via ChimeraX-users <chimerax-users@cgl.ucsf.edu> wrote:
Dear colleagues,
Could you advise on how to crop the map to the new 3D box size and save those changes?
Thank you.
Sincerely, Dmitry