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Switching to broadcasting random walk #747

Merged
merged 14 commits into from
Aug 29, 2024
Merged

Switching to broadcasting random walk #747

merged 14 commits into from
Aug 29, 2024

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seabbs
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@seabbs seabbs commented Aug 15, 2024

Description

Following on from #746 this PR switches to broadcasting for the random walk parameterizations. It also adds docs and tests.

Initial submission checklist

  • My PR is based on a package issue and I have explicitly linked it.
  • I have tested my changes locally (using devtools::test() and devtools::check()).
  • I have added or updated unit tests where necessary.
  • I have updated the documentation if required and rebuilt docs if yes (using devtools::document()).
  • I have followed the established coding standards (and checked using lintr::lint_package()).
  • I have added a news item linked to this PR.

After the initial Pull Request

  • I have reviewed Checks for this PR and addressed any issues as far as I am able.

@seabbs seabbs enabled auto-merge August 15, 2024 16:39

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This is how benchmark results would change (along with a 95% confidence interval in relative change) if d94e55e is merged into main:

  • ✔️default: 42.5s -> 41.4s [-24.51%, +19.32%]
  • ✔️no_delays: 45.4s -> 48.9s [-8.07%, +23.47%]
  • ✔️random_walk: 9.93s -> 9.54s [-16.52%, +8.61%]
  • ✔️stationary: 23.6s -> 19.7s [-50.29%, +16.86%]
  • ✔️uncertain: 1.19m -> 1.19m [-32.79%, +33.36%]
    Further explanation regarding interpretation and methodology can be found in the documentation.

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jamesmbaazam
jamesmbaazam previously approved these changes Aug 28, 2024
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Thanks @seabbs. LGTM. Thanks for adding the tests and documentation.

To confirm that I understood everything here. This was more of a refactoring exercise to use more elegant stan tricks right? I noticed most of the right hand side code is a better rewrite of the deleted code using what we would call vectorization in R parlance.

Co-authored-by: James Azam <james.azam@lshtm.ac.uk>
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seabbs commented Aug 28, 2024

yes and to ideally reduce compilation and run time (which I think it does a tiny bit)

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This is how benchmark results would change (along with a 95% confidence interval in relative change) if 7822fe8 is merged into main:

  • ✔️default: 45.1s -> 41.8s [-24.03%, +9.1%]
  • ✔️no_delays: 48.4s -> 50.8s [-20.71%, +30.28%]
  • 🚀random_walk: 10s -> 8.72s [-25.79%, -0.65%]
  • ✔️stationary: 20.1s -> 20.2s [-18.99%, +20.08%]
  • ✔️uncertain: 1.16m -> 1.06m [-17.68%, +1.32%]
    Further explanation regarding interpretation and methodology can be found in the documentation.

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This is how benchmark results would change (along with a 95% confidence interval in relative change) if 8457a9e is merged into main:

  • 🚀default: 51.6s -> 44.2s [-25.39%, -3.16%]
  • ✔️no_delays: 52.1s -> 50.4s [-18.4%, +11.55%]
  • ✔️random_walk: 9.89s -> 9.79s [-10.02%, +7.99%]
  • ✔️stationary: 20.9s -> 20.3s [-14.35%, +8.79%]
  • ✔️uncertain: 1.07m -> 1.17m [-13.96%, +33.69%]
    Further explanation regarding interpretation and methodology can be found in the documentation.

@seabbs seabbs added this pull request to the merge queue Aug 29, 2024
Merged via the queue into main with commit 39cdaff Aug 29, 2024
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@seabbs seabbs deleted the broadcast-rw branch August 29, 2024 13:39
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2 participants