root mesh of atlas not visualised

Describe the bug Brainrender GUI does not visualise the root mesh of the atlas selected. Same problem when using pip install brainrender and pip install -U git+https://github.com/BrancoLab/BrainRender.git

Besides me, there are two other users hat I know of who have the same issue.

To Reproduce I believe version 2.0.5.3 of brainrender and vedo-2021.0.5 (ran pip install brainrender today) both macOS 12.4 and Windows 10
both Python 3.6 and 3.7 in vitrual environments

Then tell us the steps to reproduce the behavior: ran brainrender-gui -a allen_mouse_10um in conda env needed to install PyQt5 by running pip install PyQt5 after brainrender installation

Expected behavior GUI to start and open a window visualizing the root mesh of the atlas selected.

Screenshots

In case it’s relevant this is printed in the terminal:

qt.qpa.fonts: Populating font family aliases took 780 ms. Replace uses of missing font family "Roboto" with one that exists to avoid this cost. 
qt.qpa.window: <QNSWindow: 0x7f8df636de00; contentView=<QNSView: 0x7f8df4bdd930; QCocoaWindow(0x600000b1a890, window=QWidgetWindow(0x600001844360, name="QWidgetClassWindow"))>> has active key-value observers (KVO)! These will stop working now that the window is recreated, and will result in exceptions when the observers are removed. Break in QCocoaWindow::recreateWindowIfNeeded to debug.
qt.qpa.window: <QNSWindow: 0x7f8df506fc10; contentView=<QNSView: 0x7f8df506f800; QCocoaWindow(0x600000b04840, window=QWidgetWindow(0x6000018b1620, name="CentralColumnWindow"))>> has active key-value observers (KVO)! These will stop working now that the window is recreated, and will result in exceptions when the observers are removed. Break in QCocoaWindow::recreateWindowIfNeeded to debug.
qt.qpa.window: <QNSWindow: 0x7f8df4bdb150; contentView=<QNSView: 0x7f8df638eca0; QCocoaWindow(0x600000b1eaa0, window=QWidgetWindow(0x6000018aebe0, name="QSplitterClassWindow"))>> has active key-value observers (KVO)! These will stop working now that the window is recreated, and will result in exceptions when the observers are removed. Break in QCocoaWindow::recreateWindowIfNeeded to debug.
qt.qpa.window: <QNSWindow: 0x7f8df5255a20; contentView=<QNSView: 0x7f8df5255610; QCocoaWindow(0x600000b10a50, window=QWidgetWindow(0x6000018a7540, name="MainWidgetWindow"))>> has active key-value observers (KVO)! These will stop working now that the window is recreated, and will result in exceptions when the observers are removed. Break in QCocoaWindow::recreateWindowIfNeeded to debug.

[darikoneil]

I can confirm @Tywang-720 's fix worked for me as well (Windows 10, Python 3.7, PyCharm). The only dependency that seems to change is that the terminal downgraded a vtk package when installing 2.0.4.5, otherwise it seems all requirements were satisfied. The downgrade to vtk 9.0.0 was kept with the final 2.0.5.3 version, so perhaps this is the issue.

[Tywang-720]

Hi: I happened to solve this problem with an emprical way. My system is Windows10. I ran brainrender 2.0.5.3 from Anaconda3 (python 3.6).

I will descirbe the process below: First I tried the above methods (click root), but it gave no response. Then I tried to roll back to history versions: I sequentially installed brainrender 2.0.4.5, 2.0.4.7, 2.0.5.0, 2.0.5.1. None of those could open brainrender-gui on my machine. Then I installed brainrender 2.0.5.3 again, this time brainrender could visualize the brain.

Hope this information helps.

So, it seems to me that, if one install brainrender 2.0.5.3 directly, then this issue would be there. After he installed history versions of brainrender, then some missing part is back.