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Adding time-varying hierarchical model #109

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Adding time-varying hierarchical model #109

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marlinfiggins
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Adding spline-based hierarchical model as an option.

Thought I had a PR for this already, but I've started adding a hierarchical model for time-varying growth advantages. Currently having issues testing due to a jax versioning issue, when I run

nextstrain build . --configfile config/config.yaml --config data_provenances=gisaid variant_classification=nextstrain_clades geo_resolutions=usa

I get the following error:

RuntimeError: jaxlib is version 0.4.6, but this version of jax requires version >= 0.4.11.

@victorlin
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RuntimeError: jaxlib is version 0.4.6, but this version of jax requires version >= 0.4.11.

This should work on the latest Nextstrain Docker runtime version nextstrain/base:build-20240918T095015Z, where both jax and jaxlib are version 0.4.33.

Could you paste the output of nextstrain version --verbose?

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@marlinfiggins @victorlin