Neurons from Navis neuPrint tutorial load but without connection tables (no n_connectors)

[Neurophila]

Description When following the Navis neuPrint tutorial currently found at https://navis.readthedocs.io/en/latest/source/tutorials/neuprint.html I encounter an issue when trying to load in the example neurons in which the connector tables do not load (no n_connectors).

To Reproduce I copied and pasted the lines of code found in the example notebook exactly as they are written, with the exception being I used my authorization token stored as a variable. When I run the following lines:

mbon_skeletons = neu.fetch_skeletons(neu.SegmentCriteria(instance='.*MBON.*_R', regex=True))
mbon_skeletons.head()

I get this output:

Expected behavior I expected these tables to populate with n_connectors. I am uncertain if I should be explicitly importing these connection tables elsewhere or if they should be populated already as in the example notebook.

Your system

• NAVis version: 1.5.0
• Python version: Python 3.8.0
• Operating System: Windows 10

[schlegelp]

Thanks for the detailed report!

neu.fetch_skeletons (and neu.fetch_mesh_neuron) have a with_synapses parameter that defaults to False. I suspect that used to be True when the tutorial was first written.

In any event, change this line should work:

>>> mbon_skeletons = neu.fetch_skeletons(neu.SegmentCriteria(instance='.*MBON.*_R', regex=True),
...                                      with_synapses=True)

I have also updated the tutorial on readthedocs but the changes haven't propagated to the website yet (probably some under-the-hood caching).

[schlegelp]

Looks like the updated tutorial is now visible. You might still have to deep-reload the website though.

[Neurophila]

Thank you for such a quick response, we have n_connectors now!