[BUG] Cell magic not found

[whitehorsesoft]

Cell magic not found
Cell magic such as %%graph_notebook_config and %%status not found.

To Reproduce
Steps to reproduce the behavior:

1. Run docker image jupyter/minimal-notebook.
2. Open in browser
3. Verify normal notebook functionality works without graph-notebook.
4. Install graph-notebook using the commands found here:

# pin specific versions of required dependencies
pip install rdflib==5.0.0

# install the package
pip install graph-notebook

5. Attempt to change configuration according to directions here:

%%graph_notebook_config
{
  "host": "localhost",
  "port": 8182,
  "ssl": false,
  "gremlin": {
    "traversal_source": "g",
    "username": "",
    "password": "",
    "message_serializer": "graphsonv3"
  }
}

6. Error occurs: "UsageError: Cell magic %%graph_notebook_config not found."
7. Verify error happens even after restarting kernel and restarting docker container.
   Expected behavior
   The cell magic should work as expected.

Desktop (please complete the following information):

• OS: Win10/WSL/Ubuntu
• Browser Chrome
• Version latest

[michaelnchin]

Hi @whitehorsesoft, thank you for submitting a bug report.

Can you confirm if you have also run the remaining installation commands for Jupyter Notebook here?

Also, please try running the commands documented here to manually configure the magics extension:

python -m graph_notebook.ipython_profile.configure_ipython_profile

[whitehorsesoft]

@michaelnchin since I'm using a docker instance, there is no need to go through the commands to install jupyter notebook or jupyter lab. So for example the command pip install "jupyterlab>=3" is not needed.

I forgot to put in the original bug report, but I did run

python -m graph_notebook.ipython_profile.configure_ipython_profile

...but there is no change, I am still getting the same errors as in the original bug report.

I'll also mention that this is not due to permissions in the docker instance. I ran both normally and with sudo permissions; the bug still exists in both situations.

I'm happy to provide further details as needed.

[michaelnchin]

Thank you for the additional details @whitehorsesoft.

I was able to reproduce on my side. During installation, loading of some extensions appears to fail silently in relation to this open issue.

As a workaround until we can get the fix into a release, please run the following modified installation sequence from a Terminal window in the JupyterLab instance. I have verified that this works on a local instance of jupyter/minimal-notebook.

# pre-install patched dependencies
pip install rdflib==5.0.0
pip install numpy==1.23.5

# install graph-notebook and sample notebooks onto instance
pip install graph-notebook
python -m graph_notebook.notebooks.install --destination ~/notebook/destination/python -m graph_notebook.notebooks.install --destination ~/notebook/destination/dir

# configure auto-loading of graph_notebook.magics extension
python -m graph_notebook.ipython_profile.configure_ipython_profile

# restart browser window to load the graph_notebook.widgets extensions

[whitehorsesoft]

Thank you, confirmed this workaround.

[michaelnchin]

Thanks for confirming. Closing the issue, please do reopen if you have any further questions.