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ISARIC data schema integration - #16

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sr-murthy wants to merge 12 commits into
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integrate-isaric-schema
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ISARIC data schema integration#16
sr-murthy wants to merge 12 commits into
mainfrom
integrate-isaric-schema

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@sr-murthy

@sr-murthy sr-murthy commented Jun 17, 2026

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  • New ISARIC data schema lib. supporting transformations of raw custom clinical datasets into ISARIC data schema form.
  • Implement some (utils) doctests (Doctests #27).
  • Update the Sphinx docs, including the contributing guide - PR build version.

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Codecov Report

❌ Patch coverage is 96.66667% with 1 line in your changes missing coverage. Please review.

Files with missing lines Patch % Lines
isaricanalytics/isaric_transformations.py 95.45% 1 Missing ⚠️
Files with missing lines Coverage Δ
isaricanalytics/analytics.py 11.33% <ø> (ø)
isaricanalytics/isaric_data_schema.py 100.00% <100.00%> (ø)
isaricanalytics/utils.py 93.75% <ø> (ø)
isaricanalytics/isaric_transformations.py 95.45% <95.45%> (ø)
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@sr-murthy sr-murthy linked an issue Jun 17, 2026 that may be closed by this pull request
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sr-murthy marked this pull request as draft June 19, 2026 14:35
@sr-murthy sr-murthy self-assigned this Jun 19, 2026
@sr-murthy
sr-murthy force-pushed the integrate-isaric-schema branch from 0c32d80 to adecb32 Compare August 3, 2026 13:40
@sr-murthy
sr-murthy force-pushed the integrate-isaric-schema branch from adecb32 to 237f894 Compare August 3, 2026 13:40
@sr-murthy
sr-murthy force-pushed the integrate-isaric-schema branch from 237f894 to 223245e Compare August 4, 2026 08:40
@sr-murthy sr-murthy added the enhancement New feature or request label Aug 4, 2026
Comment thread isaricanalytics/isaric_transformations.py Dismissed
Comment thread isaricanalytics/isaric_transformations.py Dismissed
@sr-murthy
sr-murthy force-pushed the integrate-isaric-schema branch from 681b4cb to b7a571c Compare August 6, 2026 10:21
@sr-murthy sr-murthy linked an issue Aug 6, 2026 that may be closed by this pull request
@sr-murthy
sr-murthy force-pushed the integrate-isaric-schema branch from 5809c11 to 8a47cf7 Compare August 6, 2026 11:56
@sr-murthy
sr-murthy force-pushed the integrate-isaric-schema branch 4 times, most recently from 0e0e052 to b9d11f1 Compare August 6, 2026 14:45
@sr-murthy
sr-murthy force-pushed the integrate-isaric-schema branch from b9d11f1 to 9c2ae7d Compare August 6, 2026 14:46
@sr-murthy
sr-murthy force-pushed the integrate-isaric-schema branch 2 times, most recently from 82db21b to e7cb954 Compare August 6, 2026 16:48
@sr-murthy
sr-murthy force-pushed the integrate-isaric-schema branch from e7cb954 to 0f5425a Compare August 6, 2026 17:13
@sr-murthy
sr-murthy force-pushed the integrate-isaric-schema branch from 0f5425a to b5fb493 Compare August 7, 2026 08:11
@sr-murthy
sr-murthy marked this pull request as ready for review August 7, 2026 10:19
@sr-murthy sr-murthy changed the title WIP: Integrate ISARIC Schema Integrate ISARIC Data Schema Aug 7, 2026
@sr-murthy sr-murthy changed the title Integrate ISARIC Data Schema ISARIC data schema integration Aug 7, 2026
@sr-murthy sr-murthy added the documentation Improvements or additions to documentation label Aug 7, 2026
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@alasdairwilson Please review, if you have time.

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Doctests Integrate ISARIC schema

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