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fix(docs): fix formatting issues in README.md

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- adapt meta-/code-/obs- rules to the local Python benchmark pipeline
- replace db-sql-ddl, code-config-env-scope, test-e2e-pytest with pipeline equivalents
- add code-python-style, data-determinism, data-naming-units, bench-methodology, build-pipeline-tasks
- normalize specs and README typography to ASCII per code-data-formatting
- rewrite root CLAUDE.md trigger table; add .cursorrules and .gitignore
- specs: pipeline plan and task specs 00-11
- rules: 19 binding rule files adapted for this project
- docs: CLAUDE.md rule-trigger table
- config: .cursorrules commit convention, .gitignore excluding out/ and .venv/
- docs: rewrite README.md with pipeline diagrams, setup guide, result placeholders
- config: requirements.txt for the closed dependency list
- datagen: make_lab_config.py writes out/config/lab_config.yaml and .done marker
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administrator
2026-07-11 13:39:13 -04:00
parent d8353953b0
commit b173ac82a9
55 changed files with 3755 additions and 9 deletions
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# Task 08 — Ontology: Relational Schema, Data Dictionary, Instruments Repository
## Goal
Formal, versioned data model driving cleansing and all exports. Iterates with Tasks 07/09/10.
## Input
- ERD (project artifact `Mary_G__LabResults__ERD.txt`), `schema/ontology_escalations.md`.
## Actions
1. Generate `schema/ddl_postgresql.sql` from the ERD: full hierarchy `ptau_data_notes → batches → coupons → samples`, four measurement branches, `atmospheres` lookup, `measurement_types` + `column_definitions`.
2. Generate `schema/data_dictionary.csv`: per measurement type — column name, unit, dtype, ordinal, description (source: the mappings of Task 07).
3. Create `schema/instruments_repository.csv`: instrument id, type, measurement type produced, measured quantities, units, valid min/max ranges, resolution. Populate incrementally from tokens + column signatures; ranges feed Task 09 anomaly rules.
4. Maintain `schema/ontology_notes.md`: every schema change with rationale (append-only).
5. Version the DDL (`-- schema_version: N` header); bump on each iteration.
## Intermediate Result (done when)
- DDL, data dictionary, and Instruments Repository are mutually consistent and cover all mapped fingerprints.
- No open items in `ontology_escalations.md`.