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Towards v0.1.0#62

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eroell merged 44 commits intomaintheislab/ehrdata:mainfrom dev/prototype-0.1.0theislab/ehrdata:dev/prototype-0.1.0Copy head branch name to clipboardNov 22, 2024

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Commits

Commits on Nov 2, 2024

• first change in notebook

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  7d7c57e

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Commits on Nov 4, 2024

• inspect why 2 omop dt fail on github ci

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• inspect why 2 omop dt fail on github ci

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• inspect why 2 omop dt fail on github ci

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• reduce redundancy; enhance docstrings

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• fix paths

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• towards more datasets

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Commits on Nov 6, 2024

• load datasets with ehrapy's download function copied; cleaner table extraction

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Commits on Nov 11, 2024

• remove dataloader

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• remove physio2012 stubs

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• merge physio2012

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• switch to logging instead of prints

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• check individual connections to resolve synthea27nj

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• try to empty cache

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• new test dir, undo workflows.yml

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• try different dir

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Commits on Nov 14, 2024

• improve download and datasets

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Commits on Nov 15, 2024

• fix pandas warning

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• use , delimiter in duckdb

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• remove extract's from api.md

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• read w/ pandas instead of duckdb

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Commits on Nov 17, 2024

• support different capitalizations; check if pre-release fail again..?

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• remove load

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• remove some things I forgot

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• move validity checks to separate file

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• enable and vanilla test for specimen table

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Commits on Nov 18, 2024

• escape the % in duckdb's read_csv

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• add robustness: empty observation,measurement,speciment acceptable

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• add empty_observation test data

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• add support for start or end of e.g. drug_exposure

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Commits on Nov 20, 2024

• pypots minimal demo

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Commits on Nov 21, 2024

• add pypots to tutorial index

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• add one-hot presence encoding for a feature

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• add first basic interval-variable support for drug_exposure

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• add strict tests for setup_variables

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• add tight test for interval vars drug_exposure table

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• support condition_occurrence

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Commits on Nov 22, 2024

• support procedure_occurrence

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• support device_exposure

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• support drug_era

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• support dose_era

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• support condition_era

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• support episode

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• Refactor time interval table query function

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