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Update AUMC with new meds transform #1

Merged
merged 163 commits into from
Aug 29, 2024
Merged

Update AUMC with new meds transform #1

merged 163 commits into from
Aug 29, 2024

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rvandewater
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mmcdermott and others added 30 commits July 29, 2024 17:33
…an example of loading MEDS_transforms configs as defaults dynamically.
…low for pushing to pypi. The pypi push workflow requires local tagging via 'git tag 0.0.3' then 'git push origin 0.0.3'
…match and revise to be fully implementable, so it is a scaffold for now until mmcdermott#119 goes in
…egration-tests-for-pre-processing

Adds a multi-stage integration test for pre-processing.
…tion_crashes

Exit metadata extraction if there is no _metadata in the event configs
…ues with the MIMIC and eICU example READMEs.
MEDS-transforms should be usable under python 3.11 as well as 3.12
…values

Adds an 'extract_values' transform to extract values and retype them from input MEDS data.
@rvandewater rvandewater marked this pull request as draft August 29, 2024 08:57
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Seems to work fully

@rvandewater rvandewater marked this pull request as ready for review August 29, 2024 12:22
@rvandewater rvandewater merged commit fefad1b into aumc Aug 29, 2024
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3 participants