DIG-1684: Update clinical_etl to v3 clinical data model

CanDIG / clinical_ETL_code

A library to convert clinical data in csv format into json documents for CanDIG ingestion

GNU Lesser General Public License v3.0

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Closed yavyx closed 1 month ago

yavyx commented 1 month ago

Created a new schema MoHSchemaV3 matching version 3 of the Marathon of Hope data model
Updated references to use MoHSchemaV3 by default
Renamed MoHSchema to MoHSchemaV2 to avoid confusion
Created a V3 default template, then edited by hand to use the appropriate mapping function for every field
Implemented field validation, updated tests and test data with v3 model

To test: Create/modify existing test data to match V3 and run CSVConvert.

mshadbolt commented 1 month ago

Updated to get most of the tests passing, the multisheet one is failing but still not really sure what it does.