Comments (6)
michaelnchin
commented on June 12, 2024
1
Hi @miguelsmuller , apologies for the late response.
Thank you for the additional information around your setup - I was able to reproduce this locally on VSCode, while the same env setup worked with Jupyter Classic Notebook and JupyterLab. The application-specific nature of the bug seems suggests that VSCode has additional requirements to get Jupyter widgets running in general.
I haven't been able to nail down a root cause as of yet, so scope of the changes needed remains ambiguous to me. Given the unclear dev time commitment required here, I think we have to consider VSCode support lower priority for now, but we will keep this in the backlog for investigation.
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michaelnchin
commented on June 12, 2024
Hi @miguelsmuller,
Can you describe the process you took install graph-notebook onto VS Code? Please provide additional details around your env (Python version and package versions used, at least for Jupyter core - run !jupyter --version)
If possible, please also provide the VS Code Jupyter logs from running the %%sparql cell. You can enable and grab the logs via these steps:
- In VS Code, open Settings, then go to Extensions -> Jupyter -> Logging
- Set the Logging level in the dropdown to "verbose", then restart VS Code
- Re-run the
%%sparqlquery in the Jupyter Notebook - Pull the logs from the "Output" tab in the lower console
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michaelnchin
commented on June 12, 2024
This issue might be related: #515
Worth checking if a downgrade to jupyter_client<8 and pyzmq<25 fixes the issue.
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miguelsmuller
commented on June 12, 2024
I will provide two comments. For the first one, I will share the environment setup I have here and the current screenshots:
Currently, I'm using a virtual environment (venv) with Python version 3.9.16. I set up the venv as follows:
~/.pyenv/versions/3.9.16/bin/python -m venv .venv
I have the following libraries installed:
pylama==8.4.1
pycodestyle==2.10.0
black==23.7.0
ipykernel==5.3.4
graph-notebook==3.8.2
jupyter==1.0.0
jupyter-client==7.1.2
jupyter-console==6.4.3
jupyter-contrib-core==0.3.3
jupyter-contrib-nbextensions==0.5.1
jupyter-core==4.9.2
jupyter-highlight-selected-word==0.2.0
jupyter-latex-envs==1.4.6
jupyter-nbextensions-configurator==0.4.1
jupyter-server==1.13.1
jupyterlab==3.2.8
jupyterlab-server==2.10.3
jupyterlab-widgets==1.1.0
rdflib==5.0.0
SPARQLWrapper==1.8.4
networkx==2.4
pandas==1.5.3
numpy<1.24.0
spacy==3.5.0
nltk==3.8.1
pydantic==1.10.7
pyarrow==12.0.1
seaborn==0.12.2
matplotlib==3.7.2
google-cloud-bigquery==3.11.3
fuzzywuzzy==0.18.0
python-Levenshtein==0.21.1
stringcase==1.2.0
python-stopwatch==1.0.5
VSCode Screenshot
Jupyter in Browser screenshot:
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miguelsmuller
commented on June 12, 2024
@michaelnchin, As you requested, here's the log generated when I execute the SPARQL query in Visual Studio Code:
11:13:24.886 [info] Handle Execution of Cells 6 for {MY_FOLDER}/0001.ipynb
11:13:24.887 [debug] start the kernel, options.disableUI=false for {MY_FOLDER}/0001.ipynb
11:13:24.889 [debug] Execution Request Sent to Kernel for cell 6
11:13:24.902 [debug] Start cell 6 execution @ 1691763204899 (clear output)
11:13:24.902 [info] Kernel acknowledged execution of cell 6 @ 1691763204899
11:13:24.922 [debug] Widget Message: WidgetManager: Loading class LayoutModel:@jupyter-widgets/base:1.2.0
11:13:24.940 [debug] Widget Message: WidgetManager: Loading class TabModel:@jupyter-widgets/controls:1.5.0
11:13:24.942 [debug] Widget Message: WidgetManager: Loading class LayoutModel:@jupyter-widgets/base:1.2.0
11:13:24.946 [debug] Widget Message: WidgetManager: Loading class TabModel:@jupyter-widgets/controls:1.5.0
11:13:24.950 [debug] Widget Message: WidgetManager: Loading class OutputModel:@jupyter-widgets/output:1.0.0
11:13:24.957 [debug] Widget Message: WidgetManager: Loading class LayoutModel:@jupyter-widgets/base:1.2.0
11:13:24.963 [debug] Widget Message: WidgetManager: Loading class ForceModel:graph_notebook_widgets:3.8.2
11:13:24.967 [debug] Widget Message: WidgetManager: Loading class OutputModel:@jupyter-widgets/output:1.0.0
11:13:24.979 [debug] Widget Message: WidgetManager: Loading class OutputModel:@jupyter-widgets/output:1.0.0
11:13:24.984 [debug] Widget Message: Received display data message c08a61d1b64f40dba9a011caaf5ad593
11:13:24.999 [debug] Version of IPyWidgets 7 determined after 0s
11:13:25.012 [debug] Widget Message: Waiting for model to be available before rendering it c08a61d1b64f40dba9a011caaf5ad593
11:13:25.014 [error] Widget Error: Error: Failed to render widget c08a61d1b64f40dba9a011caaf5ad593, Error: widget model not found
11:13:25.018 [info] End cell 6 execution @ 1691763204950, started @ 1691763204899, elapsed time = 0.051s
11:13:25.018 [debug] Cell 6 executed with state Success
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miguelsmuller
commented on June 12, 2024
No problem, @michaelnchin .
I appreciate the time you've taken to conduct this initial investigation.
If I can assist in any way, please let me know. I'd be happy to collaborate.
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