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spatialaudio / nbsphinx

:ledger: Sphinx source parser for Jupyter notebooks
https://nbsphinx.readthedocs.io/
MIT License
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py3Dmol visualisation not rendered properly #186

Open fsimkovic opened 6 years ago

fsimkovic commented 6 years ago

Using the py3Dmol extension in a notebook works fine but when converting the notebook with nbsphinx the panel gets condensed to a narrow width.

An example can be found on this page

https://mmtf-pyspark-test.readthedocs.io/en/latest/demos/applications/MetalInteractionsAdvanced.html#Visualize-Data

Disabling overflow: auto shows the panel in full width but obviously is not the solution to this problem. Wrapping the visualisation into another div also works but the next nboutput remains on the same line.

What's the best way to bypass this and get a full 700px by 700px viewer with the Out message on the next line?

mgeier commented 6 years ago

Thanks for the report!

I don't know yet what causes the problem, but I've seen that there are similar problems when viewing on Github (https://github.com/fsimkovic/mmtf-pyspark/blob/master/demos/applications/MetalInteractionsAdvanced.ipynb), on nbviewer (http://nbviewer.jupyter.org/github/fsimkovic/mmtf-pyspark/blob/master/demos/applications/MetalInteractionsAdvanced.ipynb) and when converting the notebook to HTML with nbconvert. It doesn't seem to work in JupyterLab, either.

I don't know if I have time to further look into that, you might want to report this to nbconvert and JupyterLab, too.

If you find any clues, please keep this issue updated!

rddaz2013 commented 6 years ago

What data type is saved as result in the ipynb file? It looks like the result is a function that could not resolved by nbsphinx.