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Create single location end-to-end forecasting CLI and associated container image #78

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merged 50 commits into from
Oct 29, 2024

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dylanhmorris
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@dylanhmorris dylanhmorris commented Oct 28, 2024

This PR:

  • Creates a script (forecast_state.py) that runs a forecast end to end (from data prep through post-processing) and writes the results (including intermediate products) to designated locations.
  • Creates an OCI container to allow that script to be run easily on cloud machines (e.g. Azure batch nodes).
  • Adds scripts under nssp_demo/batch to set up pools and jobs.
  • Transitions from using renv to manage R deps to creating a skeleton package (hewr) with all needed R deps as Imports, and installs it in as part of the container build.
  • Does some cleanup on scripts
  • Fixes terminology around "ed visits" for clarity / precision.
  • Reduces default infection feedback priors.
  • All of the above has been tested in Azure batch.

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@damonbayer damonbayer left a comment

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I left many comments, but no mandatory changes. Let me know if you would like me to address any of them myself.

@damonbayer damonbayer mentioned this pull request Oct 29, 2024
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Merging this @damonbayer. Thanks for the review / comments.

@dylanhmorris dylanhmorris merged commit d65e57d into main Oct 29, 2024
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@dylanhmorris dylanhmorris deleted the dhm-azure-proof-of-concept branch October 29, 2024 17:17
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3 participants