jml
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9bfa626203
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docs: reorganize documentation structure for clarity
Major documentation restructure to improve discoverability and reduce duplication.
## Changes
**Deleted (Archived/Consolidated)**:
- Removed duplicate getting started guides
- Archived outdated planning documents
- Consolidated corpus and configuration docs
- Removed obsolete vision/spec files (superseded by vision.md)
- Cleaned up scrapyard and old PDFs
**New Structure**:
- docs/about/ - Project overview and introduction
- docs/guides/ - User guides (moved from root)
- docs/specs/ - Technical specifications
- docs/sdk/ - SDK documentation (Go)
- docs/references/ - API references
- docs/archive/ - Archived historical docs
- applications/aphoria/docs/advanced/ - Advanced topics
- applications/aphoria/docs/reference/ - CLI reference
- applications/aphoria/docs/archive/ - Archived aphoria docs
**Updated**:
- README.md - New root README with clear navigation
- CONTRIBUTING.md - Contribution guidelines
- CLAUDE.md - Updated paths to new structure
- roadmap.md - Added recent completions
## Files Changed
- 57 files changed
- 1,977 insertions(+)
- 961 deletions(-)
**Net change**: +1,016 lines (added CONTRIBUTING.md, README.md, reorganized content)
Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>
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2026-02-11 07:33:40 +00:00 |
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jordan
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157dbbb9eb
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feat: Complete Aphoria Phase 8-9 + UAT suite (90/90 tests passing)
## Phase 8: Enterprise Extractor Improvements ✅
- 14 security extractors (TLS, JWT, SQL injection, XSS, etc.)
- 10 framework-specific extractors (Spring, Django, Rails, etc.)
- Config file security detection (YAML, TOML)
## Phase 9: Autonomous Extractor Generation ✅
- Shadow mode executor with TP/FP tracking
- Graduation pipeline with confidence thresholds
- Auto-rollback on regression detection
- Cross-project pattern syncing
## UAT Suite Complete (14 scripts, 90 tests)
- test-core-detection.sh (6 tests)
- test-declarative-extractors.sh (5 tests)
- test-domain-frameworks.sh (5 tests)
- test-domain-unreal.sh (3 tests)
- test-llm-extraction.sh (6 tests)
- test-eval-harness.sh (5 tests)
- test-cross-language.sh (3 tests)
- test-precommit-performance.sh (4 tests)
- test-output-formats.sh (8 tests)
- test-drift-detection.sh (6 tests)
- test-exit-codes.sh (12 tests)
+ 3 more scripts
## Other Changes
- Updated roadmap to mark Phase 8-9 complete
- Added .gitignore entries for build artifacts
- Updated pre-commit: 800 line limit, exclude tests/data/cmd
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
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2026-02-06 22:50:55 -07:00 |
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jordan
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55349845d0
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refactor: Split all files to enforce 500-line max
Break monolith source files into focused modules:
- stemedb-core/types.rs → types/ directory (assertion, source, gold_standard, etc.)
- stemedb-storage: audit_store, quota_store, trust_rank_store, vector_index, vote_store → module directories
- stemedb-ingest/worker.rs → worker/ with separate test modules
- stemedb-query: engine, materializer, query → module directories
- stemedb-lens: epoch_aware, skeptic → module directories
- stemedb-sim/lib.rs → agent, arenas/, helpers, runner, strategy, types
- stemedb-api/tests: integration_tests → http_basic, http_validation, http_epoch, http_pipeline
- stemedb-api/tests: e2e_flow_test → e2e_full_pipeline, e2e_lens_resolution
- stemedb-query/tests: e2e_pipeline → e2e_pipeline + e2e_decay
Also adds new features: gold standard verification, escalation handlers,
admin endpoints, concept hierarchy spec, arena roadmap, and Go SDK.
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
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2026-02-02 01:13:45 -07:00 |
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jordan
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1ce4004807
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feat: Complete Phase 2 (The Cortex) - query, lens, and API layers
This commit adds the read path (Cortex) to complement the write path (Spine):
## Crates
- stemedb-api: HTTP API with axum + utoipa OpenAPI
- /v1/assert, /v1/query, /v1/epoch, /v1/skeptic, /v1/trace, /v1/audit
- Metered endpoints with quota enforcement
- Ed25519 signature verification
- stemedb-lens: Truth resolution lenses
- RecencyLens, ConsensusLens, ConfidenceLens
- VoteAwareConsensusLens (Ballot Box pattern)
- TrustAwareAuthorityLens (The Hive pattern)
- SkepticLens (conflict analysis)
- EpochAwareLens (paradigm-safe queries)
- stemedb-query: Query engine with materialized views
## Storage Extensions
- VoteStore: Vote aggregation with cached counts
- TrustRankStore: Agent reputation with decay
- AuditStore: Query audit trail
- IndexStore: SP/P/S index structures
- SupersessionStore: Epoch supersession chains
## SDKs
- sdk/go/steme: Go HTTP client with Ed25519 signing
- sdk/go/adk: ADK-Go tools for AI agents
## Documentation
- Updated CLAUDE.md, architecture.md, roadmap.md
- New ai-lookup entries for all services
- Use case docs for consumer health intelligence
- Arena roadmap for simulation advancement
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
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2026-02-01 13:22:44 -07:00 |
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