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feat: add pis_study and pis_credible_set#146

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project-defiant wants to merge 2 commits intodevfrom
3734-gentropy-input-dataset-transfer
Draft

feat: add pis_study and pis_credible_set#146
project-defiant wants to merge 2 commits intodevfrom
3734-gentropy-input-dataset-transfer

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@project-defiant project-defiant commented Oct 28, 2025

Context

This PR closes opentargets/issues#3734

Implementations

  1. Add jobs to download studies and credible_sets from the staging buckets and put the raw data into ${release_uri}/input
  2. Update overwrites for the gentropy ppp config to include the input paths
  3. Add pis_study, pis_credible_set and ppp versions of the steps to the up config

Note

study and credible set dataset names are following the [platform docs](https://platform-docs.opentargets.org/gentropy/fine-mapping

Warning

This is still WIP, as the otter may use the copy_dir job that would make this much easier

Note

ppp credible sets and studies have additional folder component that needs to be flattened before passing
to gentropy.

Tests

I had tested the jobs on local PIS instance.

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Gentropy input dataset transfer

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