I'm trying to run pymol in batch mode without launching the window. I am
running PyMOL 3.1.1.
Here is my code for an example script (test.py). I'm trying to run before
running the real script. In the command line I enter:
pymol -cq test.py
from pymol import cmd
import time
def main():
print("Starting PyMOL batch processing...")
cmd.load("3gbn.pdb")
do_stuff()
print("Loaded 3gbn.pdb")
time.sleep(25) # Ensure commands are processed
cmd.quit()
if __name__ == "__main_":
main()
I don't get any output. If I type:
pymol -c test.py
It appears that pymol starts and closes:
[image: image.png]
Any help on how to run a python script with pymol in batch without opening
the GUI would be appreciated.
Yarrow
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