Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Does the notebook build and run in binder? #180

Closed
Tracked by #172
ricardobarroslourenco opened this issue Jun 26, 2023 · 5 comments
Closed
Tracked by #172

Does the notebook build and run in binder? #180

ricardobarroslourenco opened this issue Jun 26, 2023 · 5 comments

Comments

@ricardobarroslourenco
Copy link
Collaborator

ricardobarroslourenco commented Jun 26, 2023

It does build the binder container, however, it does not complete the run due to a kernel restart (likely due to OOM error). The kernel restarted while trying to run cell 6.

@ricardobarroslourenco
Copy link
Collaborator Author

ricardobarroslourenco commented Jun 26, 2023

Binder was run as this (note: if decided to keep running on binder, it would be good to include the markdown button on the notebook and/or the main documentation):

Binder

Code of the button:

[![Binder](https://mybinder.org/badge_logo.svg)](https://mybinder.org/v2/gh/eds-book-gallery/repro-challenge-team-3/main?labpath=%2Fnotebooks%2Fnotebook.ipynb)

@ricardobarroslourenco
Copy link
Collaborator Author

ricardobarroslourenco commented Jun 27, 2023

@acocac were you able to run on Binder?

I also tried to run in a separate HPC environment, but it is taking a long time to run (and almost without having CPU utilization). I wonder if the routine consumes many resources from the internet, and as I am running in an isolated cluster, it halts.

@ricardobarroslourenco
Copy link
Collaborator Author

I just made it work on an HPC node, and I think that Binder is crashing due to RAM issues. My node used 10GB of RAM during processing and I wonder if that is what may be causing the Binder environment to restart the kernel.

@acocac
Copy link
Member

acocac commented Jun 27, 2023

[Binder](https://mybinder.

Thanks for generating the badge. fyi, we provide the link to binder within the Review PR

@acocac
Copy link
Member

acocac commented Jun 27, 2023

I just made it work on an HPC node, and I think that Binder is crashing due to RAM issues. My node used 10GB of RAM during processing and I wonder if that is what may be causing the Binder environment to restart the kernel.

I think the kernel restarts because inactivity... the cell for downloading the large dataset takes ~1h so it could explain it too.

Btw, I'm moving your comments as a new issue tab in the notebook repository. Closing this one then.

@acocac acocac closed this as completed Jun 27, 2023
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Labels
None yet
Projects
None yet
Development

No branches or pull requests

2 participants