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Recommended way to launch the coregistration GUI #9451

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hoechenberger opened this issue Jun 8, 2021 · 2 comments · Fixed by #10802
Closed

Recommended way to launch the coregistration GUI #9451

hoechenberger opened this issue Jun 8, 2021 · 2 comments · Fixed by #10802
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@hoechenberger
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Currently, the mne.gui.coregistration() docs say:

The recommended way to use the GUI is through bash with:

$ mne coreg
  • Why is that "recommended"? Working with "normal" users I got the impression that having to use the command line makes it much more inefficient (if not difficult) for them to loop over multiple participants, which is often what is needed, than when using Python code.
  • Why does it specifically recommended to use bash? I'm using zsh, which is now also the default on macOS.

Proposal

We should mention that an alternative way to start the coreg gui is via the CLI, but I'd remove the implications that it's "recommended" and requires bash.

@mmagnuski
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I don't know if this is related but using mne coreg recently I always end up with an unresponsive kernel once I close the GUI (Windows). IIRC restarting the spyder console does not always help and I have to restart Spyder. Maybe that's why it is recommended to start coreg from the console.
I can test more if that would be helpful.

@larsoner larsoner added this to the 1.0 milestone Nov 2, 2021
@larsoner larsoner modified the milestones: 1.0, 1.1 Feb 11, 2022
@larsoner larsoner modified the milestones: 1.1, 1.2 Jun 4, 2022
@alexrockhill
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From #10779, https://mne.tools/dev/auto_tutorials/forward/20_source_alignment.html#defining-the-headmri-trans-using-the-gui looks like it has the space for code to launch the coreg GUI but it's not actually executed. I think it should be executed here and maybe we can add a video tutorial since that's the new thing.

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