docs(phase-01): complete phase execution

Phase 1 (Data Infrastructure) verified: 5/5 must-haves, 12/12 artifacts,
9/9 key links, 7/7 requirements satisfied. All 4 plans executed across
3 waves with 49 tests passing.

Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com>
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2026-02-11 16:50:30 +08:00
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See: .planning/PROJECT.md (updated 2026-02-11)
**Core value:** Produce a high-confidence, multi-evidence-backed ranked list of under-studied cilia/Usher candidate genes that is fully traceable — every gene's inclusion is explainable by specific evidence, and every gap is documented.
**Current focus:** Phase 1 - Data Infrastructure
**Current focus:** Phase 1 complete — ready for Phase 2
## Current Position
Phase: 1 of 6 (Data Infrastructure)
Plan: 4 of 4 in current phase
Status: Complete
Last activity: 2026-02-11 — Completed 01-04-PLAN.md (CLI integration and end-to-end testing)
Status: Phase complete — verified
Last activity: 2026-02-11 — Phase 1 verified (5/5 must-haves, 12/12 artifacts, 7/7 requirements)
Progress: [█████░░░░░] 16.7% (1/6 phases complete, 4/4 plans in phase 1 complete)