Hi,

I hope you are doing well.

I have a python script (myscript.py) as follows:

from chimerax.core.commands import run

import os

os.chdir("C:\\Users\\Shubham\\Desktop")

run(session, "open C:\\Users\\Shubham\\Desktop\\PDB_Script\\1ebt.pdb")   # location of my pdb file

run(session, "sel aromatic & protein")    

run(session, "log clear")

run (session, "info residue sel")

run(session, "log save aromatic_list.html")

I am using the following prompt for calling chimerax from command prompt:

Gui enabled:   chimerax --script C:\\Users\\Shubham\\Desktop\\myscript.py

Gui disabled:   chimerax --nogui --script C:\\Users\\Shubham\\Desktop\\myscript.py

With gui mode enabled, the html file, aromatic_list.html, is created.

However, when disabling gui, nothing is created.

I suspect this is because I am relying on the log which may not be functional when gui is disabled?

Is there a way of redirecting the output of certain commands (e.g info, distance, angle) to a desired text file when disabling gui?

I tried with sys.stdout but it did not work (empty text files were created.).

Regards,

Shubham

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