[Mne_analysis] mne.gui.coregistration - coloured fiducial dots not showing

[Eric Larson]

        External Email - Use Caution        

If the rendering is done in a VM it's likely to be using MESA GL software
rendering, can you see if any of these help?

https://mne.tools/dev/install/advanced.html#off-screen-rendering-in-mne-python-on-linux-with-mesa

Eric


On Tue, Jul 7, 2020 at 9:33 AM FAIRS Amie <amie.FAIRS at univ-amu.fr> wrote:

>         External Email - Use Caution
>
> Dear mne community,
>
>
>
> Sorry again for another error message. I’m trying to run
> mne.gui.coregistration, but while the MRI appears to load (there is a head)
> there are no fiducials plotted. There is a fiducial file that is found in
> the watershed folder for my subject, but I cannot see any of the fiducials
> plotted so cannot edit them if needs be.
>
>
>
> I’m running mne python via spyder on linux, but not through anaconda,
> because anaconda clashed with something in my VM and so previously the GUI
> wouldn’t even launch. My sys info is below. One thing to note: I don’t have
> pyvistaqt because when trying to install it there is an error with pyqt5
> version 5.15 and that dependency cannot be loaded, so pyvistaqt also failed
> to install.
>
>
>
> Do you know why the fiducial points are not visible in the GUI?
>
> As an aside, the linux system I am using is the one bundled with
> freesurfer as a VM for running freesurfer on windows. A bit off topic but
> do I need a different linux distribution to make this work?
>
>
>
> Any help would be really appreciated.
>
>
>
> mne.sys_info()
>
> Platform:      Linux-5.3.0-62-generic-x86_64-with-Ubuntu-18.04-bionic
>
> Python:        3.6.9 (default, Apr 18 2020, 01:56:04)  [GCC 8.4.0]
>
> Executable:    /usr/bin/python3.6
>
> CPU:           x86_64: 6 cores
>
> Memory:        19.8 GB
>
>
>
> mne:           0.20.7
>
> numpy:         1.19.0 {blas=openblas, lapack=openblas}
>
> scipy:         1.5.1
>
> matplotlib:    3.2.2 {backend=module://ipykernel.pylab.backend_inline}
>
>
>
> sklearn:       0.23.1
>
> numba:         0.50.1
>
> nibabel:       3.1.1
>
> cupy:          Not found
>
> pandas:        1.0.5
>
> dipy:          1.1.1
>
> mayavi:        4.7.1 {qt_api=pyqt5, PyQt5=5.11.3}
>
> pyvista:       0.25.3
>
> vtk:           8.1.2
>
>
>
> Best,
>
>
>
> Amie
>
>
>
> ------------------
>
> Dr. Amie Fairs
>
> Post-doctorant
>
> Aix-Marseille Université
>
> Laboratoire Parole et Langage (LPL) | CNRS UMR 7309 | 5 Avenue Pasteur |
> 13100 Aix-en-Provence
>
> Email : amie.fairs at univ-amu.fr
>
>
>
> While I may send this email outside of typical working hours, I have no
> expectation to receive an email outside of your typical hours.
>
>
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