Andrew Charlwood 5b1569ed5c fix: correct patient identifier for GP diagnosis lookup (Task 3.3) ...

Two critical fixes for the indication-based pathway feature:

1. clean_snomed_code() now handles scientific notation (e.g., "1.06e+16")
   - CSV export from pandas/Excel converts large SNOMED codes to scientific notation
   - Without this fix, codes like "10629311000119108" were stored as "1.06e+16"
   - Now properly converts to full integer strings

2. batch_lookup_indication_groups() now uses PseudoNHSNoLinked instead of PersonKey
   - PersonKey is LocalPatientID (provider-specific like "J188448")
   - PseudoNHSNoLinked is the pseudonymised NHS number that matches PatientPseudonym in GP records
   - Without this fix, 0% of patients matched GP records
   - Test shows ~20% match rate for ADALIMUMAB patients with correct identifier

2026-02-05 15:49:24 +00:00

..

__init__.py

Initial commit before Ralph loop

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cache.py

Initial commit before Ralph loop

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data_source.py

Initial commit before Ralph loop

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database.py

Initial commit before Ralph loop

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diagnosis_lookup.py

fix: correct patient identifier for GP diagnosis lookup (Task 3.3)

2026-02-05 15:49:24 +00:00

load_snomed_mapping.py

fix: correct patient identifier for GP diagnosis lookup (Task 3.3)

2026-02-05 15:49:24 +00:00

loader.py

Initial commit before Ralph loop

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migrate.py

feat: add chart_type column to pathway_nodes schema (Task 2.2)

2026-02-05 14:24:57 +00:00

pathway_pipeline.py

feat: add indication pathway processing functions (Task 2.3)

2026-02-05 14:32:28 +00:00

patient_data.py

Initial commit before Ralph loop

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reference_data.py

Initial commit before Ralph loop

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schema.py

feat: add chart_type column to pathway_nodes schema (Task 2.2)

2026-02-05 14:24:57 +00:00

snowflake_connector.py

Initial commit before Ralph loop

2026-02-04 13:04:29 +00:00