Hi Yumeng, You can a put a Chimera command into python as explained on this page in the Programmer Guide: <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 Jul 20, 2022, at 8:34 AM, Yumeng Yan via Chimera-users <chimera-users@cgl.ucsf.edu> wrote:

Hi all,

I tried to fit some models into a large density map using python script for chimera. Do you know how to set the VolumeViewer module in python script to show all the surface of the density map like command line” volume #1 style surface region all level 0.15 step 1”?

Here is my python code:

Import chimera import FitMap import VolumeViewer

model_list = chimera.openModels.open("test.pdb") em_map = VolumeViewer.open_volume_file("test.mrc")[0]

“python code ” for “volume #1 style surface region all level 0.15 step 1”

model = chimera.selection.ItemizedSelection([model_list[0]]) listfit = FitMap.fitcmd.fitmap(model, em_map, resolution=5.0, metric="correlation")

Thanks and best wishes,

Yumeng