Hi Antonio,
You can suppress this message with:
cmd.feedback("disable", "scene", "actions")
Cheers,
Thomas
> On Nov 20, 2020, at 10:23 PM, Antonio Serrano <[email protected]> wrote:
>
> ############## CONTEXT ##############
> Running PyMol 2.4 on Ubuntu 20.04.1 LTS.
>
> I'm launching the PyMol's GUI from a Python script executed from the shell
> like this:
>
> python my_script.py
>
> A virtual environment is activated. This venv takes PyMol's Python
> interpreter from ~/pymol/bin/. I import the pymol module inside the script
> following these instructions
> (https://pymolwiki.org/index.php/Launching_From_a_Script):
>
> import pymol
> pymol.finish_launching(['pymol'])
>
> ############## THE ISSUE ##############
> My program continuously writes PNG images within a loop with the following
> command:
>
> cmd.png("./my_image", width=84, height=84, dpi=-1.0, ray=0, quiet=1)
>
> When turning the parameter quiet=1 it's supposed to work quietly. But it
> keeps printing the following message in the stdout over and over again each
> time it writes an image on disk inside the loop:
>
> ScenePNG: wrote 84x84 pixel image to file "./my_image.png".
>
> My program is also printing some debugging information, so this unnecessary
> message is quite annoying and spoils my output.
>
> I also tried to disable it with the following command line option when
> importing the pymol library in the script (seen in
> https://pymolwiki.org/index.php/Command_Line_Options):
>
> import pymol
> pymol.finish_launching(['pymol', '-Q'])
>
> But it doesn't work either. If I was running the program without GUI, I could
> try to redirect the stdout to “nothing” with some of these clever tricks
> (https://stackoverflow.com/questions/6735917/redirecting-stdout-to-nothing-in-python).
> For example, using the following function:
>
> @contextmanager
> def stdout_redirected(to=os.devnull):
> fd = sys.stdout.fileno()
>
> def _redirect_stdout(to):
> sys.stdout.close()
> os.dup2(to.fileno(), fd)
> sys.stdout = os.fdopen(fd, 'w')
>
> with os.fdopen(os.dup(fd), 'w') as old_stdout:
> with open(to, 'w') as file:
> _redirect_stdout(to=file)
> try:
> yield
> finally:
> _redirect_stdout(to=old_stdout)
>
> And then do this:
> with stdout_redirected():
> cmd.png("./my_image", width=84, height=84, dpi=-1.0, ray=0,
> quiet=1)
>
> This trick worked for me in the past. But since I need the GUI now, I get the
> following error:
> Traceback (most recent call last):
> File "mvdqn_train.py", line 525, in <module>
> main()
> File "mvdqn_train.py", line 386, in main
> env = gym.make("docking-v0", kwargs=env_args)
> File
> "/home/aserrano/pymol/lib/python3.7/site-packages/gym/envs/registration.py",
> line 145, in make
> return registry.make(id, **kwargs)
> File
> "/home/aserrano/pymol/lib/python3.7/site-packages/gym/envs/registration.py",
> line 90, in make
> env = spec.make(**kwargs)
> File
> "/home/aserrano/pymol/lib/python3.7/site-packages/gym/envs/registration.py",
> line 60, in make
> env = cls(**_kwargs)
> File
> "/home/aserrano/projects/mvdqn/gym-docking-vis/gym_docking_vis/envs/docking_env.py",
> line 128, in __init__
> self.initial_state = generate_images(None, self.views, self.num_views,
> self.input_height, self.input_width, self.n_channels)
> File
> "/home/aserrano/projects/mvdqn/gym-docking-vis/gym_docking_vis/envs/utils_env.py",
> line 636, in generate_images
> with stdout_redirected():
> File "/home/aserrano/pymol/lib/python3.7/contextlib.py", line 112, in
> __enter__
> return next(self.gen)
> File
> "/home/aserrano/projects/mvdqn/gym-docking-vis/gym_docking_vis/envs/utils_env.py",
> line 682, in stdout_redirected
> fd = sys.stdout.fileno()
> AttributeError: module 'pcatch' has no attribute 'fileno'
>
> Any clue to solve this issue? Thx.
>
> Cheers,
> Antonio
>
>
> "Este mensaje es privado y confidencial y se dirige exclusivamente a su
> destinatario. Si usted recibe este mensaje por error, no debe revelar,
> distribuir o copiar este e-mail. Por favor, comuníquelo al remitente y borre
> el mensaje y los archivos adjuntos de su sistema. No hay renuncia a la
> confidencialidad ni a ningún privilegio a causa de una transmisión errónea o
> por mal funcionamiento".
>
> "This message is private and confidential and it is intended exclusively for
> the addressee. If your receive this message by mistake, you should not
> disseminate, distribute or copy this e-mail. Please inform the sender and
> delete the message and attachments from your system. No confidentiality or
> any privilege regarding the information is waived or lost by any
> mistransmission or malfunction".
>
> No me imprimas si no es necesario.
> Don't print me unless it's necessary.
>
> _______________________________________________
> PyMOL-users mailing list
> Archives: http://www.mail-archive.com/[email protected]
> Unsubscribe:
> https://sourceforge.net/projects/pymol/lists/pymol-users/unsubscribe
--
Thomas Holder
PyMOL Principal Developer
Schrödinger, Inc.
_______________________________________________
PyMOL-users mailing list
Archives: http://www.mail-archive.com/[email protected]
Unsubscribe:
https://sourceforge.net/projects/pymol/lists/pymol-users/unsubscribe
