Hi Rene, Sorry, there is no Chimera command to save a marker file (.cmm) --the current way is with the Volume Tracer tool's File menu. <http://www.rbvi.ucsf.edu/chimera/docs/ContributedSoftware/volumepathtracer/v...> IThe "write" command can save a marker file as PDB, but not as the marker format, unfortunately. In ChimeraX, it is much more convenient: the "save" command saves many formats including marker (.cmm), e.g.: save output.cmm models #2 <http://rbvi.ucsf.edu/chimerax/docs/user/commands/save.html> However, ChimeraX does not yet save labels as marker notes, and the marker notes are not shown as labels when a cmm file is read. <http://rbvi.ucsf.edu/chimerax/docs/user/markers.html> Best, Elaine ----- Elaine C. Meng, Ph.D. UCSF Chimera(X) team Department of Pharmaceutical Chemistry University of California, San Francisco

On Sep 8, 2020, at 5:24 AM, Rene Frank <R.Frank@leeds.ac.uk> wrote:

Hi, I would like to save a .cmm marker file on the command line by specifying the model number. Please can you help me with what is the command to do this. Thank you, Rene