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4 Commits

Author SHA1 Message Date
jordan
b3e8a9a058 feat: Multi-application expansion with chaos testing and community UI 
Major additions:
- Community Next.js app (port 18187) for browsing claims with API docs
- stemedb-chaos crate: Fault injection, chaos testing, CRDT properties
- Latent ingestion system: Reddit/FDA ingesters with ADK-Go agents
- Disputed claims handling: Manual review workflows and validation
- Aphoria security scanner: New extractors (SQL injection, command
  injection, weak crypto, TLS version), policy-based ignores, UAT reports
- Docker infrastructure: Dockerfile, docker-compose.yml for full stack
- VulnBank demo: Intentionally vulnerable multi-language test corpus

SDK & API enhancements:
- Source registry handlers for tracking data provenance
- Metrics endpoint
- Skeptic filtering improvements

Code quality:
- Split 14 large files (>500 lines) into focused modules
- All files now under 500-line limit per project guidelines

Documentation:
- Chaos testing guide, circuit breakers, observability docs
- Phase 7 UAT documentation updates
- Martin Kleppmann technical writer agent

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
 2026-02-04 01:24:14 -07:00
jordan
2b0923f20e feat: Distributed replication foundation (Phase 6A) - HLC, Merkle trees, CRDT stores, sync protocol 
- Add Hybrid Logical Clock (HLC) for causality tracking across nodes
- Implement Merkle tree for efficient diff/sync with BLAKE3 hashing
- Add CRDT-aware stores for assertions and votes with vector clocks
- Create stemedb-sync crate with anti-entropy and gossip protocols
- Add stemedb-rpc crate with gRPC sync service (proto definitions)
- Implement SupersessionChain for tracking assertion lifecycles
- Add Aphoria application for code analysis/reporting
- Add battery11 replication test scaffolding
- Fix .gitignore to exclude nested target directories

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
 2026-02-02 19:31:54 -07:00
jordan
137a588ed0 feat: Concept hierarchy (Phase 5D) - ConceptPath, source schemes, AliasStore 
Implements hierarchical subject identifiers with scheme-based source tier inference:

- ConceptPath type with parse/wire_format, leaf/parent, prefix matching
- SourceScheme registry mapping schemes to default SourceClass tiers:
  - rfc://, fda://, ietf:// → Regulatory (Tier 0)
  - peer://, pubmed:// → PeerReviewed (Tier 1)
  - code://, wiki:// → Expert (Tier 3)
  - blog://, anon:// → Anecdotal (Tier 5)
- AliasStore for cross-scheme entity resolution (bidirectional indexing)
- API endpoints for concept operations
- Battery tests 8, 9 & 10 for concepts, aliases, and advanced signatures
- Go SDK updates for concept types and signing

Completes Phase 5, advancing to Phase 6 (Distributed Writes).

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
 2026-02-02 17:44:54 -07:00
jordan
42d4e09508 feat: Index persistence (Phase 5C) - vector hot/cold, visual checkpoint 
Phase 5C (Index Persistence) implementation:
- PersistentVectorIndex with hot/cold architecture
  - Hot: in-memory HNSW for recent vectors
  - Cold: memory-mapped HNSW loaded from disk
  - Background builder for WAL replay and atomic swap
  - BLAKE3 integrity verification
- PersistentVisualIndex with checkpoint persistence
  - BkTreeSnapshot with rkyv serialization
  - CRC32C corruption detection
  - Atomic write pattern (temp → fsync → rename)
- Key codec additions for vector index metadata
- Split large files into modules (<500 lines each)
  - battery_pre_sentinel.rs → battery/ directory
  - visual_index.rs → visual_index/ directory
  - persistent.rs → persistent/ directory
- Refactored ingest worker tests for clarity
- Updated roadmap to mark Phase 5 complete

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
 2026-02-02 15:43:18 -07:00