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feat: run variant index step#188

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DSuveges merged 12 commits intomainopentargets/gentropy:mainfrom il-variant-indexopentargets/gentropy:il-variant-indexCopy head branch name to clipboardOct 19, 2023

+3,902-3,601

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Commits on Oct 16, 2023

• feat: change catalog_study_locus path under common study_locus

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• refactor(variant_index): checkpoint

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• feat(studylocus): change unique_lead_tag_variants to unique_variants_in_locus + test

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• refactor(variantindex): add logic to filter for variants to VariantIndex.from_variant_annotation

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Commits on Oct 17, 2023

• feat(session): read files recursively

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Commits on Oct 18, 2023

• refactor(studylocus): simplify unique_variants_in_locus and improve testing

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• fix(session): revert recursive lookup and use kwargs

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• chore: fix typo for gnomad_genomes

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• build: lock hail version to 0.2.122 to fix #3088

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• build: lock hail version to 0.2.122 to fix #3088

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• Merge branch 'main' of https://github.com/opentargets/genetics_etl_python into il-variant-index

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Commits on Oct 19, 2023

• Merge branch 'main' into il-variant-index

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