Add GitHub Codespace environment and demo notebooks

[kabilar]

• Add Codespace devcontainers from workflow-calcium-imaging main branch
• Add DataJoint config environment variables
• Update requirements
• Remove notebooks in anticipation of tutorial revamp
• Remove jupytext synced scripts since GitHub now natively supports rich diffs with Jupyter notebooks.
• Add demo notebooks
• Update readme to mirror other repos. Include instructions for interactive tutorials with GitHub Codespaces.

[kushalbakshi]

Hi @kabilar, the codespace is working without any major issues. Just a couple of small suggestions. We should add example_data/ to .gitignore and remove the following line from demo_prepare.ipynb:

ephys.Curation().create1_from_clustering_task(clustering_key)

It throws an error since we're using ephys_no_curation. We're ready to merge after that.

[kabilar]

Hi @kabilar, the codespace is working without any major issues. Just a couple of small suggestions. We should add example_data/ to .gitignore and remove the following line from demo_prepare.ipynb:

ephys.Curation().create1_from_clustering_task(clustering_key)

It throws an error since we're using ephys_no_curation. We're ready to merge after that.

Thanks @kushalbakshi. On GitHub Codespace, I was defaulting to using the ephys_acute module (see default setting). Could it be that you are setting the ephys mode to ephys-no-curation in your dj_local_conf?

[kabilar]

Added an EPHYS_MODE environment variable to the Dockerfile to explicitly use the ephys_acute module.

[kushalbakshi]

Hi @kabilar, the codespace is working without any major issues. Just a couple of small suggestions. We should add example_data/ to .gitignore and remove the following line from demo_prepare.ipynb:

ephys.Curation().create1_from_clustering_task(clustering_key)

It throws an error since we're using ephys_no_curation. We're ready to merge after that.

Thanks @kushalbakshi. On GitHub Codespace, I was defaulting to using the ephys_acute module (see default setting). Could it be that you are setting the ephys mode to ephys-no-curation in your dj_local_conf?

I think there's definitely an issue on my end. Since it's working in your testing, I'm proceeding with the merge. Thank you!

[kabilar]

Version 0.3.0 is tagged and released.