<p><span style="padding: 3px 10px; border-radius: 5px; color: #ffffff; font-weight: bold; display: inline-block; background-color: #ff0000;"> External Email - Use Caution </span></p><p></p><div dir="auto">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.<div dir="auto"><br></div><div dir="auto">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.</div></div><br><div class="gmail_quote"><div dir="ltr" class="gmail_attr">On Tue, Jul 7, 2020, 11:32 AM Eric Larson <<a href="mailto:larson.eric.d@gmail.com">larson.eric.d@gmail.com</a>> wrote:<br></div><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><p><span style="padding:3px 10px;border-radius:5px;color:#ffffff;font-weight:bold;display:inline-block;background-color:#ff0000"> External Email - Use Caution </span></p><p></p><div dir="ltr">(For the antialias option, you'll need to try latest MNE-Python master, not 0.20.7)</div><br><div class="gmail_quote"><div dir="ltr" class="gmail_attr">On Tue, Jul 7, 2020 at 11:30 AM Eric Larson <<a href="mailto:larson.eric.d@gmail.com" target="_blank" rel="noreferrer">larson.eric.d@gmail.com</a>> wrote:<br></div><blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left:1px solid rgb(204,204,204);padding-left:1ex"><div dir="ltr">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?<div><br></div><div><a href="https://mne.tools/dev/install/advanced.html#off-screen-rendering-in-mne-python-on-linux-with-mesa" target="_blank" rel="noreferrer">https://mne.tools/dev/install/advanced.html#off-screen-rendering-in-mne-python-on-linux-with-mesa</a><br></div><div><br></div><div>Eric</div><div><br></div></div><br><div class="gmail_quote"><div dir="ltr" class="gmail_attr">On Tue, Jul 7, 2020 at 9:33 AM FAIRS Amie <<a href="mailto:amie.FAIRS@univ-amu.fr" target="_blank" rel="noreferrer">amie.FAIRS@univ-amu.fr</a>> wrote:<br></div><blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left:1px solid rgb(204,204,204);padding-left:1ex">
<div lang="EN-GB"><p><span style="padding:3px 10px;border-radius:5px;color:rgb(255,255,255);font-weight:bold;display:inline-block;background-color:rgb(255,0,0)"> External Email - Use Caution </span></p><p></p>
<div>
<p class="MsoNormal"><span lang="FR">Dear mne community,<u></u><u></u></span></p>
<p class="MsoNormal"><span lang="FR"><u></u> <u></u></span></p>
<p class="MsoNormal">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. <u></u>
<u></u></p>
<p class="MsoNormal"><u></u> <u></u></p>
<p class="MsoNormal">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.
<u></u><u></u></p>
<p class="MsoNormal"><u></u> <u></u></p>
<p class="MsoNormal">Do you know why the fiducial points are not visible in the GUI?<u></u><u></u></p>
<p class="MsoNormal">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?<u></u><u></u></p>
<p class="MsoNormal"><u></u> <u></u></p>
<p class="MsoNormal">Any help would be really appreciated.<u></u><u></u></p>
<p class="MsoNormal"><u></u> <u></u></p>
<p class="MsoNormal">mne.sys_info()<u></u><u></u></p>
<p class="MsoNormal">Platform: Linux-5.3.0-62-generic-x86_64-with-Ubuntu-18.04-bionic<u></u><u></u></p>
<p class="MsoNormal">Python: 3.6.9 (default, Apr 18 2020, 01:56:04) [GCC 8.4.0]<u></u><u></u></p>
<p class="MsoNormal">Executable: /usr/bin/python3.6<u></u><u></u></p>
<p class="MsoNormal">CPU: x86_64: 6 cores<u></u><u></u></p>
<p class="MsoNormal">Memory: 19.8 GB<u></u><u></u></p>
<p class="MsoNormal"><u></u> <u></u></p>
<p class="MsoNormal">mne: 0.20.7<u></u><u></u></p>
<p class="MsoNormal">numpy: 1.19.0 {blas=openblas, lapack=openblas}<u></u><u></u></p>
<p class="MsoNormal">scipy: 1.5.1<u></u><u></u></p>
<p class="MsoNormal">matplotlib: 3.2.2 {backend=module://ipykernel.pylab.backend_inline}<u></u><u></u></p>
<p class="MsoNormal"><u></u> <u></u></p>
<p class="MsoNormal">sklearn: 0.23.1<u></u><u></u></p>
<p class="MsoNormal">numba: 0.50.1<u></u><u></u></p>
<p class="MsoNormal">nibabel: 3.1.1<u></u><u></u></p>
<p class="MsoNormal">cupy: Not found<u></u><u></u></p>
<p class="MsoNormal">pandas: 1.0.5<u></u><u></u></p>
<p class="MsoNormal">dipy: 1.1.1<u></u><u></u></p>
<p class="MsoNormal">mayavi: 4.7.1 {qt_api=pyqt5, PyQt5=5.11.3}<u></u><u></u></p>
<p class="MsoNormal">pyvista: 0.25.3<u></u><u></u></p>
<p class="MsoNormal">vtk: 8.1.2<u></u><u></u></p>
<p class="MsoNormal"><u></u> <u></u></p>
<p class="MsoNormal"><span lang="FR">Best,<u></u><u></u></span></p>
<p class="MsoNormal"><span lang="FR"><u></u> <u></u></span></p>
<p class="MsoNormal"><span lang="FR">Amie<u></u><u></u></span></p>
<p class="MsoNormal"><span lang="FR"><u></u> <u></u></span></p>
<p class="MsoNormal"><span lang="FR">------------------
<u></u><u></u></span></p>
<p class="MsoNormal"><span lang="FR">Dr. Amie Fairs<u></u><u></u></span></p>
<p class="MsoNormal"><span lang="FR">Post-doctorant<u></u><u></u></span></p>
<p class="MsoNormal"><span lang="FR">Aix-Marseille Université<u></u><u></u></span></p>
<p class="MsoNormal"><span lang="FR">Laboratoire Parole et Langage (LPL) | CNRS UMR 7309 | 5 Avenue Pasteur | 13100 Aix-en-Provence<u></u><u></u></span></p>
<p class="MsoNormal"><span>Email : </span><span lang="FR"><a href="mailto:amie.fairs@univ-amu.fr" target="_blank" rel="noreferrer"><span lang="EN-GB">amie.fairs@univ-amu.fr</span></a></span><span><u></u><u></u></span></p>
<p class="MsoNormal"><span><u></u> <u></u></span></p>
<p class="MsoNormal"><span>While I may send this email outside of typical working hours, I have no expectation to receive an email outside of your typical hours.<u></u><u></u></span></p>
<p class="MsoNormal"><u></u> <u></u></p>
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