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

[Luke Bloy]

        External Email - Use Caution        

Those won't help unfortunately. The problem is that it won't render any
points with an alpha not equal to one. If you change the alpha, using the
mayavi settings they will show up.

Eric, I think one of the cis might match the llvm driver and opengl that is
causing the problem so maybe we have a place to test so we can submit a bug
report to vtk? I just need to confirm with your new PR.

On Tue, Jul 7, 2020, 11:32 AM Eric Larson <larson.eric.d at gmail.com> wrote:

>         External Email - Use Caution
>
> (For the antialias option, you'll need to try latest MNE-Python master,
> not 0.20.7)
>
> On Tue, Jul 7, 2020 at 11:30 AM Eric Larson <larson.eric.d at gmail.com>
> wrote:
>
>> 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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