**Git Commit Tracking**
- Automatically capture git commit hash when claims/observations are ingested
- Store in assertion metadata for temporal context and audit trails
- Graceful degradation in non-git environments
- Solves double-commit problem by capturing hash at ingestion time
**Implementation**
- walker/git.rs: get_current_commit_hash() utility function
- bridge.rs: Accept optional git_commit parameter in all conversion functions
- episteme/local: Store project_root, capture git hash during ingestion
- 5 new tests for git hash tracking + metadata validation
- All 1162 aphoria tests passing
**Documentation Overhaul**
- README: Added Observations vs Claims distinction, git tracking, dashboard
- CLI Reference: New sections for git integration and ignore/exclusion system
- Comprehensive ignore documentation: .aphoriaignore, inline comments, 4 methods
- Enhanced verification engine docs with matching capabilities
- DOCUMENTATION_UPDATES.md: Complete audit summary
**Dashboard Separation**
- Moved Aphoria-specific UI from stemedb-dashboard to aphoria-dashboard
- Clean separation of concerns: StemeDB for core, Aphoria for security
- Added dashboard documentation and setup guides
Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>
- Add [profile.test] with opt-level=1 and debug=0 for faster compile/link
- Add [profile.test.build-override] with opt-level=3 for proc-macros
- Add tiered test targets: test-fast (single crate), test-lib (unit tests)
- Add install-nextest target for parallel test runner
- Update CLAUDE.md with new test command options
- Add CRATE variable guard to test-fast for helpful error messages
Expected improvement: ~50% faster incremental test builds
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
Creates skill for installing and running StemeDB/Aphoria:
- Three installation tiers: Solo, Team, Enterprise
- Step-by-step installation protocol (prerequisites, build, init, verify)
- Optional StemeDB server setup for team observation aggregation
- Troubleshooting section for common issues
- Uninstall instructions
- Environment variable reference
Routing added to CLAUDE.md for discoverability.
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
Enterprise Features:
- Hosted mode with remote sync for team pattern aggregation
- Community sharing with privacy-preserving anonymization
- LLM-based semantic claim extraction with Gemini integration
- Pattern learning with promotion to declarative extractors
- High-entropy secrets extractor with configurable thresholds
- Auth bypass and insecure cookies extractors
Module Refactoring:
- Split oversized files to comply with 500-line limit
- Config split: types/core.rs, types/extractors.rs, types/hosted.rs, etc.
- Handlers split: scan.rs, policy.rs, report.rs modules
- Extractors split: declarative/, high_entropy_secrets/, insecure_cookies/
- Learning split: store modules with metrics and persistence
SDK & Ontology:
- stemedb-ontology SDK with fluent builders and StemeDB client
- Pharma domain extractors for FDA Orange Book data
- Consumer health UAT test infrastructure
Code Quality:
- Fixed clippy warnings (needless_borrows_for_generic_args)
- Added KVStore trait imports where needed
- Fixed utoipa path re-exports for OpenAPI docs
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
Major additions:
- Staged scanning modes (working tree, staged, committed) with git integration
- Drift detection for baseline vs current state comparisons
- Hosted API handlers for policy CRUD operations via StemeDB API
- stemedb-ontology crate with domain definitions and medical extractors
- Consumer health vertical UAT scenarios (GLP-1, gastroparesis, etc.)
- Aphoria development skill documentation
Code organization:
- Split large files into focused modules to stay under 500-line limit
- Extracted config tests, episteme helpers/drift/aliases, API helpers
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
Content Defense (Phase 7):
- Add SimilarityIndex with MinHash/LSH for near-duplicate detection
- Add QuarantineStore for flagged assertions awaiting admin review
- Add CircuitBreakerStore for per-agent circuit breaker state
- Add ContentDefenseLayer for ingestion pipeline integration
- Add API endpoints for quarantine and circuit breaker management
- Add research module with gap detection and documentation fetching
Code Structure Improvements:
- Extract research CLI commands to research_commands.rs
- Extract API routers to routers.rs module
- Extract key_codec extraction functions to separate module
- Extract test modules to separate files across multiple crates
- All files now under 500 line limit per pre-commit hook
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
Add stemedb-cluster crate implementing horizontal scaling:
- SWIM-based membership protocol for node discovery and failure detection
- Consistent hashing (jump hash) for subject-to-shard routing
- Range management with dynamic split (>64MB) and merge (<20MB) operations
- Stateless HTTP gateway for client request routing via axum
- Meta-range gossip merge for cluster-wide metadata propagation
Includes restrictive CORS policy, proper error propagation from routing,
replica cache invalidation on node failure, and 84 tests (57 unit + 27
integration). Raft MV coordination deferred per design decision.
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
- Add Layered() method to Go SDK for per-source-class consensus queries
- Add LayeredQueryParams, LayeredResult, TierResolution types to Go SDK
- Create conflict example demonstrating Skeptic and Layered endpoints
- Update quickstart.md with sections 6 (conflict detection) and 7 (authority tiers)
- Remove tracked Go binary and add data/ to .gitignore
The new quickstart sections demonstrate Episteme's differentiating features:
- Skeptic endpoint shows "Trust but Verify" conflict analysis
- Layered endpoint shows per-tier resolution (Clinical vs Anecdotal)
Note: Pre-existing large files flagged by pre-commit hook (technical debt from prior sessions)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
Phase 1 delivers the complete durability and storage layer:
- WAL with crash recovery: Append-only journal with BLAKE3 checksums,
fsync guarantees, and proper seek-to-EOF on reopen
- Storage engine: sled-backed KVStore with scan_prefix for range queries
- Content-addressed storage: H:{hash}, V:{hash}, E:{hash} key patterns
- Ingestor: Background worker tailing WAL, writing to KV with 8-byte
aligned record headers for rkyv zero-copy deserialization
- Comprehensive tests: 31 tests covering crash recovery, round-trips,
and multi-cycle durability
New crates: stemedb-wal, stemedb-storage, stemedb-ingest
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
