4 Commits

Author	SHA1	Message	Date
admin	fcbde7c689	Restructured src to more logical heirachy	2026-02-09 16:22:05 +00:00
Andrew Charlwood	76838887e6	refactor: reorganize repository to src/ layout ... Move 6 packages (core, config, data_processing, analysis, visualization, cli) into src/ to reduce root clutter. Merge tools/data.py into data_processing/transforms.py. Move docs to docs/. Path resolution via .pth file (setup_dev.py), pytest pythonpath config, and sys.path bootstrap in rxconfig.py and CLI entry points. Clean up pyproject.toml deps (remove stale pins, add snowflake-connector-python). Fix tomllib import for Python 3.10 compatibility. All 113 tests pass.	2026-02-06 12:03:48 +00:00
Andrew Charlwood	adc1dbfc58	feat: complete Task 2.2 - test refresh pipeline with Snowflake data ... Tested full refresh pipeline end-to-end with real Snowflake data: - Fixed trust filter to read Name column from defaultTrusts.csv - Fixed Decimal type handling in calculate_cost_per_patient_per_annum - Fixed array handling in convert_to_records for average_administered - Added required reference CSV files to data/ directory - Configured Snowflake connection (account, warehouse, user) Results: - Snowflake fetch: 656,695 records in ~7s - Transformations: 519,848 records after UPID/drug/directory - Pathway nodes: 293 for all_6mo (8 trusts, 14 directories) - Total processing time: ~6.2 minutes	2026-02-05 00:20:12 +00:00
Andrew Charlwood	fdd33a67af	Initial commit before Ralph loop	2026-02-04 13:04:29 +00:00