NWB Tutorial directory

Workshop material for NWB workshop.

There are three ways to interactively work on the notebook. Starting from the easiest they are:

1. Run using binder. You only need to click on the badge and when the service is up you should be ready to go:

2. Using github codespaces (requires a github account).

   • Login into github
   • Select your avatar (your image) -> settings -> Codespaces -> At editor preference select JupyterLab (You can change this later).
   • Fork the repository by clicking fork button.
   • Go in your forked repository.
   • Select the code dropdown (Green button) -> the Codespaces tab -> Create codespace on main.
   • Wait until the codespace is up it will take a few minutes.
   • Select the neuroconv.ipynb notebook from notebooks.
   • Wait for a few minutes until the workshop kernel is available check using ls ~/.local/share/jupyter/kernels
   • Change the kernel to workshop.
   • At the end of the workshop/using the notebook make sure you stop the codespace

3. Using a local jupyter installation

   • Create a virtual environment python3 -m venv workshop
   • Activate the environment. . workshop/bin/activate
   • Install the requirements using the requirements.txt file. pip install -r requirements.txt
   • Create a jupyter kernel with the virtual environment dependencies python -m ipykernel install --user --name=workshop
   • Run jupyter notebook (or jupyter lab) and select the workshop kernel
   • The jupyter installation might need to have the following packages added: - plotly - ipywidgets - ipydatagrid - pygments