Pre-rendering Javascript powered visualizations in notebooks using nbconvert

[Güngör Budak]

Hi,

I'm using bokeh to generate interactive visualizations and I want to pre-render / execute the notebooks I programmatically generate using "jupyter nbconvert --to notebook --execute notebook1.ipynb --output notebook1_output.ipynb". Although it seems it executes the cells but the outputs from JS powered visualizations are not stored in the executed notebook file and manual execution is required on the browser.

Is there a way to keep such outputs in the notebook files programmatically through Terminal?

We had some discussion on bokeh forums please have a look at it.

Best

Gungor

[Thomas Kluyver]

Hi Güngör,

Their speculation in the later part of that thread is essentially correct. Nbconvert runs your Python code and produces the output, which from Jupyter's point of view is the Javascript Bokeh sends to produce the plots. That Javascript runs when you open the file in your browser, but at that point the Bokeh backend it needs to talk to is gone, so it can't display the plot.

If you need Javascript to execute while the kernel is running, you'll need to run it in a browser. Depending on your use case, that could mean automating a headless browser (using e.g. Selenium), or some extra Javascript running in a regular browser.

Thomas

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[Güngör Budak]

Hi Thomas,

It makes sense, thanks for the tips I'll try a headless browser

Best

Gungor

On Tuesday, August 8, 2017 at 1:40:03 PM UTC+3, takowl wrote:

Hi Güngör,

Their speculation in the later part of that thread is essentially correct. Nbconvert runs your Python code and produces the output, which from Jupyter's point of view is the Javascript Bokeh sends to produce the plots. That Javascript runs when you open the file in your browser, but at that point the Bokeh backend it needs to talk to is gone, so it can't display the plot.

If you need Javascript to execute while the kernel is running, you'll need to run it in a browser. Depending on your use case, that could mean automating a headless browser (using e.g. Selenium), or some extra Javascript running in a regular browser.

Thomas

On 8 August 2017 at 08:17, Güngör Budak <gng...@gmail.com> wrote:

Hi,

I'm using bokeh to generate interactive visualizations and I want to pre-render / execute the notebooks I programmatically generate using "jupyter nbconvert --to notebook --execute notebook1.ipynb --output notebook1_output.ipynb". Although it seems it executes the cells but the outputs from JS powered visualizations are not stored in the executed notebook file and manual execution is required on the browser.

Is there a way to keep such outputs in the notebook files programmatically through Terminal?

We had some discussion on bokeh forums please have a look at it.

Best

Gungor

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