CDCgov / CDCgov/DynODE

Build a stripped down version of the sampler/solver to see what is reducing our performance if anything

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experiment
Dominant language
Python
Stars
13
Forks
3
Avg merge
19h 43m
Merged PRs (30d)
1

Description

build a really stripped down version of our infrastructure. No classes, just the sampler, parameters, and ODEs / diffrax solve. To see if there are dramatic improvements to the performance of fitting.

If so, slowly add back onto the model until we understand what exactly is slowing it down and how to best avoid it.

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First steps

  1. Read the whole issue, then the project's contributing guide.
  2. Comment on the issue to say you are picking it up — it saves two people doing the same work.
  3. Fork the repository and make your change on a branch.
  4. Open a pull request that references the issue number.

Research direction

Start by locating the sampler, parameters, ODEs, and Diffrax solve used by the fitting workflow. Compare the stripped-down implementation's performance with the existing infrastructure, then add components back incrementally until the source of the slowdown is identified and documented.

Written by the indexing model from the issue text.

Assessment

Tech stack
python
Domain
performance
Issue type
Refactor
Difficulty
5/5
Estimated time
Over a week
Activity status
Stale
Clarity
Mostly clear
Newbie friendliness
25/100

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