Voila with slicerJupyter

Development
1

Hi all,

Sorry, I am asking this question again as a new topic. I am trying to use Jupyter slicer to visualize my results and share it to some non-technical users. For this, I am planning to use Viola with a jupyter notebook.

First I have developed my Jupyter notebook (following @lassoan notebook : GitHub - Slicer/SlicerNotebooks: Examples that illustrate how to use 3D Slicer via Jupyter notebooks in Python) which visualizes my results. It worked well.

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Now I want to remove the code blocks from my notebook, so a user can directly interact with the results. For this I am trying to integrate voila with binder as follows:

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but I am getting this error:

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I think I am making some mistakes with the docker file or something. Can you please help me with this?

For your reference, my repository is:

4

Hi,

I am still stuck in this problem,. I have been reading several articles, e.g:
https://blog.jupyter.org/slicerjupyter-a-3d-slicer-kernel-for-interactive-publications-6f2ad829f635

it seems fairly easy to deploy your app with Voila, however I could not manage to do it yet. Has anyone tried this? Can anyone share any example?
For reference, the link of my repo is attached in my last message…

Thanks.

5

Hello, I have been trying other options. I came across with a Jupyer appmode: (GitHub - oschuett/appmode: A Jupyter extensions that turns notebooks into web applications.). The app mode is similar to what we have in voila, however, using appmode I could not be able to run Slicer Kernel. There are some problems with the Docker I think.

Can anyone help me with this?

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the notebook could not find slicer Kernel.

Here is my repos for reference.

Thanks you.

7

Hi developers, Sorry for asking this question again…
Since it mentioned here, it seems a bit straightforward, however, I could not manage to deploy slicer jupyter with Voila…

https://blog.jupyter.org/slicerjupyter-a-3d-slicer-kernel-for-interactive-publications-6f2ad829f635

Please let me know if that’s even possible?

8

Let’s put this first on the list or tomorrow’s developer hangout.

9

Thanks alot. I will discuss what I am up to and what options do I have. I seek your guidance and suggestions.

Thank you.

10

Hi all!

I have the same problem here. I am trying to run Voila inside the 3D Slicer docker instance, but it returns a “404: Not Found” error.

I installed Voila via pip install voila. When I tried to install it directly from the extension manager, it returned an error about Node.js and npm.

Were you able to run Voila inside the 3D Slicer docker instance?