societal-costs-pipeline-2026-02-02 0.1.0__py3-none-win_amd64.whl

pipeline.example.toml

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+[study]
+name = "societal_costs"
+price_year = 2015
+discount_rate = 0.03
+data_start_year = 1994
+data_end_year = 2024
+# data_min_age = 0
+# data_max_age = 17
+
+# Optional: prefix all relative register paths with this base.
+# base_path = "/path/to/registers_root"
+
+[cohort]
+exposure_definition = "primary"
+severity_threshold = "moderate"
+age_at_dx_min = 0
+age_at_dx_max = 5
+baseline_years = 5
+require_full_baseline = true
+
+[cohort.match_spec]
+ratio = 4
+caliper_days = 31
+strata = ["sex", "municipality", "birth_year"]
+use_ps_weights = false
+parent_matching = "both"
+require_both_parents = false
+allow_replacement = false
+unique_by_key = "family_id"
+require_real_inputs = true
+
+[cohort.bef]
+source_path = "/path/to/BEF_snapshots"
+source_format = "sas7bdat"
+# reference_date only needed for single snapshot files
+# reference_date = "2015-01-01"
+
+[cohort.vnds]
+source_path = "/path/to/VNDS.sas7bdat"
+source_format = "sas7bdat"
+immigration_codes = ["I"]
+emigration_codes = ["U"]
+allow_reentry = false
+
+[cohort.dod]
+source_path = "/path/to/DOD.sas7bdat"
+source_format = "sas7bdat"
+
+[cohort.dodsaars]
+source_path = "/path/to/DODSAARS.sas7bdat"
+source_format = "sas7bdat"
+
+[cohort.dodsaasg]
+source_path = "/path/to/DODSAASG.sas7bdat"
+source_format = "sas7bdat"
+
+[components]
+follow_up_filter = true
+availability_overrides = [
+  { component = "hospital_drugs", metric = "adm_price", start_year = 2010, end_year = 2024 },
+]
+
+# LMDB disabled for now; hospital drugs are the only cost component in use.
+[components.prescriptions]
+source_path = ""
+source_format = "sas7bdat"
+atc_levels = [1, 2, 3, 4]
+emit_cost_placeholder = true
+
+[components.lpr]
+lpr2_admissions_path = "/path/to/LPR_ADM.sas7bdat"
+lpr2_visits_path = "/path/to/LPR_BES.sas7bdat"
+lpr2_diagnoses_path = "/path/to/LPR_DIAG.sas7bdat"
+lpr3_kontakter_path = "/path/to/KONTAKTER.sas7bdat"
+lpr3_kontakt_path = "/path/to/KONTAKT.sas7bdat"
+lpr3_diagnoser_path = "/path/to/DIAGNOSER.sas7bdat"
+lpr3_diagnose_path = "/path/to/DIAGNOSE.sas7bdat"
+scd_inpatient_contact_types = ["HOSP", "IND"]
+scd_primary_source = "episode"
+acute_codes = ["A"]
+elective_codes = ["E"]
+elective_threshold = 0.30
+acute_threshold = 0.23
+department_field = "answering"
+patient_type_method = "hybrid"
+stitch_window_hours = 4
+
+[components.hospital_drugs]
+source_path = "/path/to/INDBERETNINGMEDPRIS.sas7bdat"
+source_format = "sas7bdat"
+lookup_path = "/path/to/LAEGEMIDDEL.sas7bdat"
+lookup_format = "sas7bdat"
+
+[missingness]
+parent_missing_strategy = "category"
+covariate_missing_strategy = "indicator"
+allow_partial_history = true
+coverage_gaps = "flag_only"
+municipal_services_available_from = 2005
+
+[outcomes]
+components = ["Healthcare", "Pharmaceuticals", "Rehabilitation", "MunicipalServices", "SocialBenefits", "ProductivityLoss"]
+
+[outcomes.winsorize]
+enabled = false
+p = 0.99
+
+[models]
+primary = "two_part"
+candidates = ["two_part", "tweedie", "lognormal"]
+tweedie_powers = [1.2, 1.5, 1.8]
+cv_folds = 5
+robust_se = true
+cluster = "family_id"
+
+[models.regularization]
+type = "elastic_net"
+lambda = 0.1
+alpha = 0.5
+exclude_intercept = true
+
+[report]
+output_dir = "outputs"
+formats = ["json", "csv", "md"]
+include_tables = true
+include_recommendations = true

societal_costs_pipeline_2026_02_02-0.1.0.dist-info/METADATA

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+Metadata-Version: 2.4
+Name: societal-costs-pipeline-2026-02-02
+Version: 0.1.0
+Summary: Societal costs pipeline CLI.
+Requires-Python: >=3.9
+Description-Content-Type: text/markdown; charset=UTF-8; variant=GFM
+
+# societal_costs
+
+Workspace for the societal costs study.
+
+## Crates
+
+- `crates/costs_core` — core domain types, aggregation, pricing, and validation.
+- `crates/costs_models` — two-part, Tweedie, and log-normal models + selection tools.
+- `crates/costs_matching` — matching + balance diagnostics.
+- `crates/costs_cohort` — cohort assignment + diagnostics.
+- `crates/costs_components` — register-derived component builders (LMDB volume so far).
+- `crates/costs_pipeline` — configuration, orchestration, and report outputs.
+
+## LMDB example
+
+See `crates/costs_pipeline/README.md` for the LMDB ingestion example.
+
+## Pipeline config
+
+Start from `pipeline.example.toml` and update the register file paths to match
+your local dataset layout. Most SAS7BDAT paths accept either a single file
+or a directory (all `.sas7bdat` files are loaded, sorted by name). You can
+also set `base_path` in the config to prefix all relative register paths.
+
+## Additional docs
+
+- `crates/costs_core/README.md` — core domain and aggregation usage.
+- `crates/costs_models/README.md` — model APIs and examples.
+- `crates/costs_models/examples/README.md` — runnable model examples.
+- `crates/costs_components/README.md` — LMDB note (missing price fields).
+- `crates/costs_pipeline/README.md` — pipeline usage and LMDB example.
+

societal_costs_pipeline_2026_02_02-0.1.0.dist-info/RECORD

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+pipeline.example.toml,sha256=SK3-vt6elMo4nTAp1FvMsz9xFIBhU7B75uu112_bMDA,3173
+societal_costs_pipeline_2026_02_02-0.1.0.data/scripts/societal_costs_cli.exe,sha256=HBfdUoP_Z5NGDJdWHg2y51tNAq_-FjDp1W14t7n071M,7527424
+societal_costs_pipeline_2026_02_02-0.1.0.dist-info/METADATA,sha256=64ueTKDwMHxZt6f9TYH3c-lISdomPH8dsWqc1t5S2Q4,1531
+societal_costs_pipeline_2026_02_02-0.1.0.dist-info/WHEEL,sha256=xova6cbuml1qEAM4WoLTi_2pkr7ezKmV0WtgWCVs8RQ,93
+societal_costs_pipeline_2026_02_02-0.1.0.dist-info/RECORD,,

societal_costs_pipeline_2026_02_02-0.1.0.dist-info/WHEEL

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+Wheel-Version: 1.0
+Generator: maturin (1.9.3)
+Root-Is-Purelib: false
+Tag: py3-none-win_amd64