viewing VTK files in jupyter

[shimwell]

I accidentally stumbled on this today while trying to view a vtk from within a container and thought the workshop could benefit from this.

Currently we ask users to install paraview locally. However we could view the vtk files directly in julyter lab.

We could include pyvista with pip install 'pyvista[jupyter]' in the docker image and then plot mesh tally results like this one from task 8

import pyvista as pv
mesh = pv.read('heating_tally_on_reg_mesh.vtk')
mesh.set_active_scalars(name='mean')
clipped = mesh.clip(normal='y')
# clipped_and_thresholded = clipped.threshold(0.1e-21)
clipped_and_thresholded = clipped.threshold_percent(0.01)
clipped_and_thresholded.plot()

📹 vtk-openmc-pyvist-jupyter.webm 📹

[jon-proximafusion]

looks like the dockerfile needs a few extra parts

•                      # needed for pyvista functionality
  

•                      xvfb
  

•            pyvista[all] \
  

•            jupyter-server-proxy \
  

•            trame
  

+CMD ["xvfb-run", "-s", "-screen 0 1024x768x24", "jupyter", "notebook", "--ip=0.0.0.0", "--no-browser", "--allow-root"]