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Author SHA1 Message Date
Claude
e46d742999 perf(dna): 1.8x kmer speedup, 10x SW memory reduction 
Smith-Waterman: rolling 2-row DP replaces 3 full (Q+1)*(R+1) matrices.
Only prev+curr rows for H/E, single scalar for F. Memory drops from
~600KB to ~12KB for 100x500bp alignment, fitting L1 cache. Traceback
matrix retained (tb==0 encodes stop condition, no full H needed).

K-mer encoding: zero-allocation canonical hashing eliminates Vec alloc
per k-mer in MinHash::sketch() via dual MurmurHash3 (fwd + rc strands).

types.rs to_kmer_vector: rolling polynomial hash computes O(1) per
k-mer instead of O(k). Removes leading nucleotide, shifts, adds
trailing in constant time using precomputed 5^(k-1).

Benchmarks (100bp query x 500bp ref / k=11):
  kmer/encode_1kb:    4.1µs → 2.3µs  (1.78x)
  kmer/encode_100kb:  364µs → 199µs  (1.83x)
  smith_waterman:     416µs → 386µs  (1.08x, 10x less memory)
  full pipeline:      1.98ms → 1.52ms (1.30x end-to-end)

95 tests pass, zero failures.

https://claude.ai/code/session_013B6stXbYwAkWHbE16sjUrq
 2026-02-11 13:59:26 +00:00
Claude
d5c3fb810f feat(dna): implement missing capabilities + optimize hot paths 
- Affine gap scoring: 3-matrix Smith-Waterman (H/E/F) with flat 1D
  arrays for cache-friendly access, direct slice indexing
- Indel detection: call_indel() for insertion/deletion from pileup data
- VCF output: VCFv4.3 format with proper CHROM/POS/REF/ALT/QUAL columns
- CYP2C19 pharmacogenomics: star allele calling (*1/*2/*3/*17),
  phenotype prediction, drug recommendations (clopidogrel, voriconazole)
- Cancer signal detection: methylation entropy + extreme ratio scoring,
  CancerSignalDetector with configurable risk threshold
- Molecular weight: monoisotopic Da for all 20 amino acids
- Isoelectric point: Henderson-Hasselbalch bisection with sidechain pKa
- K-mer encoding: zero-allocation canonical hashing (hash both strands,
  take min) eliminates O(n) Vec allocs per sliding window
- CRC32: lookup table replaces bit-by-bit (~8x faster header checksums)
- Benchmarks: added RVDNA, epigenomics, protein analysis groups

95 tests pass (54 lib + 12 kmer + 17 pipeline + 12 security)

https://claude.ai/code/session_013B6stXbYwAkWHbE16sjUrq
 2026-02-11 05:31:16 +00:00
Claude
7674e6aafc docs(dna): rewrite README with RVDNA format, real gene data, benchmarks 
Complete README rewrite reflecting the final state of the project:
- Added "What It Does" section showing actual 8-stage demo output
- Added RVDNA AI-native format section with format comparison table
- Added real gene data section (HBB, TP53, BRCA1, CYP2D6, INS)
- Added actual Criterion benchmark numbers (155ns SNP, 12ms full pipeline)
- Fixed Quick Start to match working binary commands
- Added collapsible module guides with accurate line counts
- Added test suite summary (87 tests, zero mocks)
- Added project structure tree with all 13 source files
- Added 13 ADR index table
- Updated architecture diagram to include RVDNA output stage

https://claude.ai/code/session_013B6stXbYwAkWHbE16sjUrq
 2026-02-11 05:03:43 +00:00
Claude
c12b3c1b42 feat(dna): add RVDNA AI-native format, real gene data, 8-stage pipeline 
New RVDNA binary format (.rvdna) purpose-built for AI genomic analysis:
- 2-bit nucleotide encoding (4x compression vs ASCII FASTA)
- Pre-computed k-mer vectors with int8 quantization for instant HNSW search
- Sparse attention matrices in COO format for direct tensor consumption
- Variant probability tensors with f16 genotype likelihoods
- Zero-copy memory-mappable with 64-byte aligned sections
- CRC32 checksums, section-level integrity verification

Real human gene sequences from NCBI RefSeq:
- HBB (hemoglobin beta, NM_000518.5) - sickle cell gene
- TP53 (tumor suppressor, NM_000546.6) - exons 5-8 hotspot
- BRCA1 (DNA repair, NM_007294.4) - exon 11 fragment
- CYP2D6 (drug metabolism, NM_000106.6) - pharmacogenomic
- INS (insulin, NM_000207.3) - preproinsulin

Pipeline upgraded to 8 stages using real data:
1. Load 5 real human genes (2,340 bp total)
2. K-mer similarity matrix across gene panel
3. Smith-Waterman alignment on HBB
4. Sickle cell variant detection at HBB codon 6
5. HBB → hemoglobin beta translation (MVHLTPEEKSAVTALWGKVN verified)
6. Horvath epigenetic clock
7. CYP2D6 *4/*10 pharmacogenomics
8. RVDNA format conversion with pre-computed vectors

87 tests, 0 failures. ADR-013 documents the format specification.

https://claude.ai/code/session_013B6stXbYwAkWHbE16sjUrq
 2026-02-11 04:48:28 +00:00
Claude
605aa7da55 chore(dna): add .gitignore for VectorDB database artifacts 
Ignores :memory: and *.db files created during test runs and binary execution.

https://claude.ai/code/session_013B6stXbYwAkWHbE16sjUrq
 2026-02-11 04:30:48 +00:00
Claude
9638ba38de feat(dna): complete SOTA genomic analysis pipeline with full test suite 
Implements a comprehensive DNA analyzer demonstrating RuVector's vector
computing capabilities for bioinformatics:

Modules (9):
- types: Core domain types (DnaSequence, Nucleotide, ProteinSequence, etc.)
- kmer: HNSW k-mer indexing with FNV-1a hashing and MinHash sketching
- alignment: Smith-Waterman local alignment with CIGAR generation
- variant: SNP calling from pileup data with genotype classification
- protein: DNA-to-protein translation with contact graph prediction
- epigenomics: Horvath clock biological age prediction from CpG methylation
- pharma: CYP2D6 star allele calling and metabolizer phenotype prediction
- pipeline: DAG-based genomic analysis orchestration
- error: Typed error handling across all modules

Testing (41 tests, 0 mocks):
- 12 k-mer integration tests (encoding, HNSW search, MinHash Jaccard)
- 17 pipeline e2e tests (alignment, variant calling, pharmacogenomics)
- 12 security tests (buffer overflow, path traversal, concurrency, bounds)

Benchmarks: Criterion suite for kmer, alignment, variant, protein, pipeline

Binary: 7-stage demo (sequence gen, k-mer search, alignment, variant
calling, protein analysis, epigenomics, pharmacogenomics)

https://claude.ai/code/session_013B6stXbYwAkWHbE16sjUrq
 2026-02-11 04:29:28 +00:00
Claude
c188316ff3 feat(dna): optimize all 12 ADRs + add DDD docs, README 
All ADRs updated with:
- Implementation Status sections (Working/Buildable/Research)
- SOTA algorithm references with citations
- Crate API mappings to actual RuVector functions
- Concrete performance math and targets

New documents:
- ADR-011: Performance targets and benchmark suite (755 lines)
- ADR-012: Genomic security and privacy (596 lines)
- DDD Bounded Context Map (602 lines)
- DDD Domain Model with Rust types (1,047 lines)
- README with features, comparisons, QuickStart (541 lines)

9,326 lines of architecture documentation total.

https://claude.ai/code/session_013B6stXbYwAkWHbE16sjUrq
 2026-02-11 04:02:06 +00:00
Claude
2bd81953aa feat(dna): add ADR-006 temporal epigenomics, ADR-008 WASM edge, ADR-010 pharmacogenomics 
ADR-006: Temporal Epigenomic & Lifespan Analysis Engine (1,177 lines)
ADR-008: WebAssembly Edge Genomics & Universal Deployment (1,117 lines)
ADR-010: Quantum-Enhanced Pharmacogenomics & Precision Medicine (1,136 lines)

10 of 15 documents now complete (10,935 total lines).

https://claude.ai/code/session_013B6stXbYwAkWHbE16sjUrq
 2026-02-11 03:43:38 +00:00
Claude
ddb9eec42c feat(dna): add 7 ADR documents for DNA analyzer architecture 
ADR-001: Vision & Context - world's fastest DNA analyzer strategy
ADR-002: Quantum Genomics Engine - Grover's, QAOA, VQE for genomics
ADR-003: HNSW Genomic Vector Index - hyperbolic space phylogenetics
ADR-004: Flash Attention Genomic Architecture - hierarchical 6-level
ADR-005: GNN Protein Structure Engine - SE(3)-equivariant folding
ADR-007: Distributed Genomics Consensus - global biosurveillance
ADR-009: Zero-False-Negative Variant Calling Pipeline

7,505 lines of scientifically-grounded architecture decisions.
Remaining ADRs (006, 008, 010-012) and DDD docs in progress.

https://claude.ai/code/session_013B6stXbYwAkWHbE16sjUrq
 2026-02-11 01:32:49 +00:00
Claude
38e56633d3 feat(dna): scaffold DNA analyzer example with claude-flow init 
- Initialize claude-flow v3 with hierarchical-mesh swarm (15 agents)
- Create examples/dna/ directory structure for ADR/DDD documents
- Update .claude/ agents, helpers, settings, and skills from init --force
- 15-agent swarm actively producing ADR-001 through ADR-012 and DDD docs

https://claude.ai/code/session_013B6stXbYwAkWHbE16sjUrq
 2026-02-11 00:25:19 +00:00
github-actions[bot]
2f1df0e788 chore: Update NAPI-RS binaries for all platforms 
Built from commit 8c36eae2da

  Platforms updated:
  - linux-x64-gnu
  - linux-arm64-gnu
  - darwin-x64
  - darwin-arm64
  - win32-x64-msvc

  🤖 Generated by GitHub Actions
 2026-02-08 22:43:26 +00:00
rUv
244b7b76ef feat(vwm-viewer): add hyper-realistic Super Bowl LX visualization 
4D Gaussian splatting demo deployed to Cloud Run at
ruvector-vwm-875130704813.us-central1.run.app

- football.html: Patriots vs Seahawks with 4000+ gaussians/frame,
  ESPN-style scorebug, 5 camera modes, play simulation engine,
  particle effects, atmospheric fog, post-processing pipeline
- canvas-viewer.html: Canvas2D fallback for generic VWM viewing
- Dockerfile + nginx.conf: Cloud Run deployment config

Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com>
 2026-02-08 22:39:31 +00:00
github-actions[bot]
20aae511e4 chore: Update NAPI-RS binaries for all platforms 
Built from commit 70f3ba6707

  Platforms updated:
  - linux-x64-gnu
  - linux-arm64-gnu
  - darwin-x64
  - darwin-arm64
  - win32-x64-msvc

  🤖 Generated by GitHub Actions
 2026-02-08 20:54:25 +00:00
rUv
ec157847ca chore: add auto-memory bridge, upgrade settings, and operational guidance 
Install @claude-flow/memory as local dependency to enable the auto-memory
bridge that was silently skipping. Update settings.json with Agent Teams
hooks (TeammateIdle, TaskCompleted), SessionStart/End memory sync, and
verified v3 configuration. Add operational guidance to CLAUDE.md covering
disk space management, upgrade procedures, and health check reference.

Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com>
 2026-02-08 20:49:35 +00:00
rUv
a68f5b9e10 docs: fix metadata and README issues from deep review 
- ruvllm: Add missing keywords, categories, readme field
- ruvector-sona: Fix docs.rs URL (was "sona", now "ruvector-sona")
- ruvector-crv: Add badges, installation, related crates
- graph-wasm npm: Add npm and license badges

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
 2026-02-08 20:49:15 +00:00
rUv
f8ffa1295d chore(graph-node): bump npm version to 2.0.2 
Aligns npm package version with crates.io release.
Updates platform dependencies to match.

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
 2026-02-08 20:49:15 +00:00
github-actions[bot]
91dafc1b7f chore: Update NAPI-RS binaries for all platforms 
Built from commit b67f3c9962

  Platforms updated:
  - linux-x64-gnu
  - linux-arm64-gnu
  - darwin-x64
  - darwin-arm64
  - win32-x64-msvc

  🤖 Generated by GitHub Actions
 2026-02-08 17:18:26 +00:00
rUv
1e3035c289 feat: add READMEs and publish ruqu packages v2.0.3 
Crates.io (v2.0.3):
- ruqu-core: High-performance quantum circuit simulator
- ruqu-algorithms: VQE, Grover, QAOA, Surface Code
- ruqu-exotic: Quantum-classical hybrid algorithms
- ruqu-wasm: WebAssembly bindings

npm (@ruvector/ruqu-wasm v2.0.3):
- Browser-native quantum simulation
- 25-qubit support with 105KB WASM bundle
- TypeScript definitions included

SEO-optimized READMEs with:
- Performance benchmarks
- API documentation
- Code examples
- ADR links

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
 2026-02-08 17:13:57 +00:00
github-actions[bot]
f08991b7a2 chore: Update NAPI-RS binaries for all platforms 
Built from commit 00aa395976

  Platforms updated:
  - linux-x64-gnu
  - linux-arm64-gnu
  - darwin-x64
  - darwin-arm64
  - win32-x64-msvc

  🤖 Generated by GitHub Actions
 2026-02-08 17:11:50 +00:00
github-actions[bot]
2faa0bb1d0 chore: Update NAPI-RS binaries for all platforms 
Built from commit fcbe23fe55

  Platforms updated:
  - linux-x64-gnu
  - linux-arm64-gnu
  - darwin-x64
  - darwin-arm64
  - win32-x64-msvc

  🤖 Generated by GitHub Actions
 2026-02-08 17:10:01 +00:00
github-actions[bot]
edddeee1ee chore: Update NAPI-RS binaries for all platforms 
Built from commit 00e8fc3f1e

  Platforms updated:
  - linux-x64-gnu
  - linux-arm64-gnu
  - darwin-x64
  - darwin-arm64
  - win32-x64-msvc

  🤖 Generated by GitHub Actions
 2026-02-08 17:07:51 +00:00
rUv
96c84f422e feat: publish ruQu quantum simulation engine crates 
Published crates:
- ruqu-core v2.0.2 - State-vector simulator
- ruqu-algorithms v2.0.2 - VQE, Grover, QAOA, Surface Code
- ruqu-exotic v2.0.2 - Quantum-classical hybrids
- ruqu-wasm v2.0.2 - WebAssembly bindings

Updated README with quantum engine section linking ADRs:
- QE-001 to QE-012: Core architecture to MinCut coherence
- Code example for GHZ state creation

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
 2026-02-08 17:06:58 +00:00
github-actions[bot]
7970c07036 chore: Update NAPI-RS binaries for all platforms 
Built from commit 8cfb2e8393

  Platforms updated:
  - linux-x64-gnu
  - linux-arm64-gnu
  - darwin-x64
  - darwin-arm64
  - win32-x64-msvc

  🤖 Generated by GitHub Actions
 2026-02-08 17:06:47 +00:00
rUv
efd0f70f56 Merge pull request #154 from ruvnet/claude/quantum-engine-adrs-6OsEO 
feat: Add quantum simulation engine ADR series (QE-001 to QE-012) and DDD design documents
 2026-02-08 12:05:03 -05:00
rUv
4a59e7e4de Merge origin/main into claude/quantum-engine-adrs-6OsEO - resolve Cargo.toml conflict 2026-02-08 17:04:57 +00:00
rUv
7781e10c0e docs: expand temporal tensor store section with PR #156 details 
Added ADR links (018-023) and DDD reference for:
- Block-based storage engine
- Tiered quantization formats
- Temporal scoring tier migration
- Delta compression reconstruction
- WASM API cross-platform
- Benchmarking acceptance criteria

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
 2026-02-08 17:03:22 +00:00
rUv
239f22214c docs: update README with new crates and BitNet features 
Added:
- ruvector-temporal-tensor: Temporal tensor store with tiered quantization
- ruvector-crv: CRV signal line protocol for vector search
- BitNet 1.58-bit quantization features to ruvllm description

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
 2026-02-08 17:02:09 +00:00
rUv
2c607c7327 chore: bump versions for BitNet integration publish 
- Workspace version: 2.0.1 → 2.0.2
- ruvector-sona: 0.1.4 → 0.1.5 (adds Debug impl for SonaEngine)
- ruvllm: 2.0.2 (BitNet integration from PR #151)

Published crates:
- ruvector-sona v0.1.5
- ruvllm v2.0.2

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
 2026-02-08 17:00:26 +00:00
github-actions[bot]
c0b610dcd1 chore: Update NAPI-RS binaries for all platforms 
Built from commit 593b44a543

  Platforms updated:
  - linux-x64-gnu
  - linux-arm64-gnu
  - darwin-x64
  - darwin-arm64
  - win32-x64-msvc

  🤖 Generated by GitHub Actions
 2026-02-08 16:59:58 +00:00
github-actions[bot]
445dace141 chore: Update NAPI-RS binaries for all platforms 
Built from commit e98ce26da3

  Platforms updated:
  - linux-x64-gnu
  - linux-arm64-gnu
  - darwin-x64
  - darwin-arm64
  - win32-x64-msvc

  🤖 Generated by GitHub Actions
 2026-02-08 16:58:30 +00:00
github-actions[bot]
926376e227 chore: Update NAPI-RS binaries for all platforms 
Built from commit 0989957d15

  Platforms updated:
  - linux-x64-gnu
  - linux-arm64-gnu
  - darwin-x64
  - darwin-arm64
  - win32-x64-msvc

  🤖 Generated by GitHub Actions
 2026-02-08 16:55:50 +00:00
rUv
a213303f3a Merge pull request #151 from ruvnet/claude/bitnet-ruvllm-research-Cz4Ot 
docs: Add ADR-017 and DDD for Craftsman Ultra 30b 1bit BitNet integration
 2026-02-08 11:55:15 -05:00
rUv
2c95c8085f docs(ruvector-crv): add README for crates.io 
Adds comprehensive README documenting the 6-stage CRV signal line
methodology mapping to ruvector subsystems. Bumped to v0.1.1.

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
 2026-02-08 16:53:49 +00:00
rUv
a8e019f9f3 chore: add version specifications for crates.io publishing 
Updated Cargo.toml files to specify explicit version requirements for
path dependencies, enabling successful publishing to crates.io.

Published crates:
- ruvector-temporal-tensor v2.0.1
- ruvector-core v2.0.1
- ruvector-gnn v2.0.1
- ruvector-raft v2.0.1
- ruvector-cluster v2.0.1
- ruvector-replication v2.0.1
- ruvector-graph v2.0.1
- ruvector-mincut v2.0.1
- ruvector-crv v0.1.0
- rvlite v0.3.0

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
 2026-02-08 16:51:20 +00:00
github-actions[bot]
3d56868f28 chore: Update NAPI-RS binaries for all platforms 
Built from commit 1f3e643e2c

  Platforms updated:
  - linux-x64-gnu
  - linux-arm64-gnu
  - darwin-x64
  - darwin-arm64
  - win32-x64-msvc

  🤖 Generated by GitHub Actions
 2026-02-08 16:44:32 +00:00
rUv
e9c8e11a6c Merge pull request #156 from ruvnet/claude/temporal-tensor-compression-adr-Lc5Do 
docs: Add ADR-018 through ADR-023 and DDD for temporal tensor store
 2026-02-08 11:40:16 -05:00
Claude
f73f13c08a feat: Add benchmarks for new features + persistence integration tests 
Benchmarks (store.rs, 8 new bench tests):
- Batch scoring 10k blocks vs individual scoring
- 5-bit and 7-bit dequant fast paths (4096 values)
- 5-bit quantize fast path (4096 values)
- SVD adaptive rank selection (64x64 matrix)
- format_report and format_json throughput
- MetricsSeries trend computation (100 snapshots)

Persistence tests (10 tests, feature-gated):
- FileBlockIO: write/read, multi-tier, delete, overwrite, missing key
- FileMetaLog: append/get, upsert, iter, missing key, multi-block

354 tests pass (with --features persistence).

https://claude.ai/code/session_01Ksy165BL5nGpVoWaAfTE7t
 2026-02-08 04:56:40 +00:00
Claude
8fa851c917 feat: Wire coherence gate, epoch tracker, and metrics series into TieredStore 
- Add CoherenceCheck, EpochTracker, MetricsSeries fields to TieredStore
- put() now records write epochs for staleness detection
- tick() auto-records metrics snapshots for trend analysis
- Add enable_coherence()/disable_coherence() + accessor methods
- Add coherence_check() convenience method on TieredStore
- 4 new integration tests verify wiring

https://claude.ai/code/session_01Ksy165BL5nGpVoWaAfTE7t
 2026-02-08 04:50:33 +00:00
Claude
ed8f369585 feat: Implement all 11 temporal tensor improvements 
- 5-bit quantize fast path (8 values → 5 bytes, no bit accumulator)
- 5-bit + 7-bit dequant fast paths (8-at-a-time byte extraction)
- Batch scoring: compute_scores_batch, choose_tiers_batch,
  score_and_partition, top_k_coldest with partial sort
- SVD improvements: reconstruction_error, energy_captured,
  compression_ratio, from_data_adaptive (auto-rank selection)
- Metrics dashboard: format_report, format_json, health_check
  with StoreHealthStatus, MetricsSeries with trend analysis
- Core trait integration (TensorStore, TensorStoreExt, TensorStoreSnapshot)
- AgentDB adapter (PatternIndex, InMemoryPatternIndex, AdaptiveTiering)
- Coherence gate (CoherenceCheck, EpochTracker, verify_put)
- Persistence layer (FileBlockIO, FileMetaLog, feature-gated)
- Stress/fuzz tests (8 adversarial scenarios)
- WASM FFI end-to-end test (feature-gated behind ffi)

306 tests pass (257 unit + 12 integration + 11 benchmarks +
14 property + 8 stress + 4 doctests).

https://claude.ai/code/session_01Ksy165BL5nGpVoWaAfTE7t
 2026-02-08 04:34:12 +00:00
Claude
fb56bd45e1 perf: Optimize quantizer + store; add comprehensive tests 
- Eliminate round() call in quantize hot path (1.8x speedup)
- Add 3-bit dequant fast path (8-values-from-3-bytes, 2.4x speedup)
- Wire WitnessLog into TieredStore (put/get/evict audit trail)
- Add TieredStore.metrics() for aggregate store statistics
- Add TieredStore.witness_log() accessors
- Update store.get() to accept `now` tick for access tracking
- 14 property-based tests (roundtrip, bitpack, segment, delta, f16,
  score monotonicity, extreme values, compression ratio, determinism)
- 11 end-to-end integration tests (lifecycle, delta chain, quality
  sweep, persistence, eviction, checksum, multi-tensor, stress,
  compressor-to-store, factor reconstruction, witness logging)

Benchmarks (4096-element tensors, release mode):
  8-bit quantize: 10,745 ns (1.52 GB/s)
  8-bit dequant:    992 ns (16.52 GB/s)
  3-bit dequant:  2,998 ns (5.46 GB/s)
  Zipf P95 read:     41 ns
  Tier flip rate: 0.074/block/min (threshold: 0.1)

All 204 tests pass.

https://claude.ai/code/session_01Ksy165BL5nGpVoWaAfTE7t
 2026-02-08 03:57:57 +00:00
Claude
bc745b6115 feat: Implement temporal tensor store with block-based tiered compression 
Implements the block-based storage engine specified in ADR-018 through
ADR-023 with 5 new modules and 1 benchmark/test suite.

New modules:
- store.rs (1056 lines): BlockKey, BlockMeta, Tier, TieredStore with
  HashMap index, per-tier data storage, CRC32 checksums, eviction,
  and BlockIO/MetaLog/Clock traits
- tiering.rs (846 lines): EMA + popcount + recency scoring with LUT-based
  fast_exp_neg, hysteresis, min_residency, budgeted maintenance,
  MigrationCandidate selection, warm aggressive mode (7->5 bit)
- delta.rs (825 lines): Sparse delta format (u16 index + i16 value),
  DeltaChain with bounded length and compaction, FactorSet for
  low-rank reconstruction, encode/decode serialization
- metrics.rs (770 lines): WitnessLog (ring buffer), WitnessEvent enum
  (Access, TierChange, Eviction, Maintenance, Compaction, etc.),
  StoreMetrics aggregates, StoreSnapshot serialization
- store_ffi.rs (680 lines): tts_init/put/get/tick/stats/touch/evict
  WASM exports with u128 split into hi/lo u64, feature-gated

Optimizations:
- 8-bit fast path in quantizer: direct byte read/write, no bit
  accumulator. Dequant: 7313ns -> 1290ns (5.7x faster, 12.7 GB/s)
- 8-bit fast path in bitpack: direct copy, no accumulator.
  Pack: 8484ns -> 742ns (11.4x), Unpack: 8845ns -> 396ns (22.3x)
- #[inline] on hot functions

Benchmark results (release, 16KB blocks):
  Quantize 8-bit:  18.9us   Dequant 8-bit: 1.3us (12.7 GB/s)
  Quantize 3-bit:  22.5us   Dequant 3-bit: 7.2us (2.3 GB/s)
  Score compute:   10ns      Single frame decode: 178ns
  Segment 8-bit decode: 1.5us (11.2 GB/s)
  Zipf P95 read: 48ns        Tier flip rate: 0.074/block/min

Quality (all PASS):
  8-bit: 0.39% max error    7-bit: 0.79% max error
  5-bit: 3.33% max error    3-bit: 16.67% max error

Tests: 170 unit + 12 integration/benchmark, all passing.

https://claude.ai/code/session_01Ksy165BL5nGpVoWaAfTE7t
 2026-02-08 03:18:51 +00:00
Claude
5b1bf32ea7 docs: Add ADR-018 through ADR-023 and DDD for temporal tensor store 
Extends ADR-017 with detailed architecture for block-based temporal
tensor compression. Introduces 6 new ADRs covering storage engine,
tiered quantization formats, temporal scoring algorithm, delta
compression/reconstruction, WASM API, and benchmarking criteria.
Adds comprehensive DDD with 5 bounded contexts mapping to the
proposed 6-crate workspace layout.

ADR-018: Block-based storage engine with BlockKey/BlockMeta model,
         append-only MetaLog, tiered data files, CRC32 checksums
ADR-019: 8/7/5/3-bit quantization formats with two-level scale,
         Tier0 compression-to-zero, codec_bits bit packing
ADR-020: EMA + popcount + recency scoring, hysteresis, budgeted
         maintenance ticks, fast exp approximation
ADR-021: Read/write paths, sparse delta format, delta chain
         compaction, factor-based reconstruction policies
ADR-022: WASM exports (tts_init/put/get/tick/stats), host-imported
         BlockIO, cross-platform strategy (native/Node/browser/edge)
ADR-023: Zipf simulation acceptance test (1M blocks, 10M accesses),
         microbench targets, failure mode catalog

DDD: 5 bounded contexts (Block Management, Quantization, Temporal
     Scoring, Storage Engine, Delta & Reconstruction) with aggregate
     roots, domain events, repository interfaces, and context map.

Total: 8,084 lines across 7 documents.

https://claude.ai/code/session_01Ksy165BL5nGpVoWaAfTE7t
 2026-02-08 02:12:38 +00:00
Claude
aacbdec281 feat: Phase 2 cross-module discoveries — 6 new experiments, all validated 
Discovery 5: Time-dependent disambiguation (decay + interference)
  Faster-decohering meaning loses embedding structure over time,
  shifting which meaning wins. "Financial" starts dominant but
  "river" takes over as financial embedding decoheres faster.

Discovery 6: QEC on swarm reasoning chains (reasoning_qec + swarm)
  Syndrome bits map to agent boundaries. Fired syndromes indicate
  where adjacent agents disagree, enabling targeted identification
  of incoherent reasoning steps.

Discovery 7: Counterfactual search explanation (collapse + reversible)
  Removing each gate and measuring divergence reveals which operation
  was most responsible for a search result. Ry gate (divergence=0.45)
  vs identity-like gate (divergence=0.0).

Discovery 8: Syndrome-diagnosed swarm health (diagnosis + swarm)
  Syndrome extraction localizes faults to the disruptor's neighborhood.
  Low-health agent creates structural vulnerability that propagates
  through connected components.

Discovery 9: Decoherence as differential privacy (decay + collapse)
  Light noise (0.01): preserves top results, divergence=0.12, entropy=1.44
  Heavy noise (1.0): randomizes results, divergence=0.61, entropy=2.07
  Calibrated decoherence provides tunable privacy for embedding search.

Discovery 10: Full 4-module pipeline (decay→interfere→collapse→QEC)
  Fresh knowledge (fidelity=0.99): correct results, 0 QEC syndromes
  Stale knowledge (fidelity=0.28): corrupted results, QEC detects degradation
  Pipeline degrades gracefully with automatic reliability signaling.

105 total tests: 57 lib + 42 Phase 1 integration + 6 Phase 2 discoveries

https://claude.ai/code/session_01B1NkbLDWYPaacS9miKsnvW
 2026-02-06 16:25:02 +00:00
Claude
c0b4f90b7b docs: Add ADR-QE-014 documenting exotic quantum-classical discoveries 
Documents 4 validated Phase 1 discoveries:
- Decoherence trajectory fingerprinting (clustering without similarity)
- Interference-based polysemy resolution (microsecond disambiguation)
- Counterfactual dependency mapping (pipeline importance scoring)
- Phase-coherent swarm coordination (quality > headcount)

Outlines 8 Phase 2 hypotheses for cross-module experiments including
time-dependent disambiguation, QEC on swarm reasoning, counterfactual
search explanation, and the full decohere-interfere-collapse-verify pipeline.

https://claude.ai/code/session_01B1NkbLDWYPaacS9miKsnvW
 2026-02-06 15:51:08 +00:00
Claude
c33ebf78f6 feat: Complete ruqu-exotic with all 8 modules, 99 tests passing, 4 discoveries 
Add reversible_memory.rs: time-reversible quantum state with gate inversion,
rewind, counterfactual analysis, and sensitivity analysis.

Add reality_check.rs: browser-native verification circuits for superposition,
entanglement, interference, phase kickback, and no-cloning theorem.

Add comprehensive integration test suite (42 tests) covering all 8 exotic
modules plus 4 cross-module discovery experiments:
- Decoherence trajectory fingerprinting (similar embeddings decohere similarly)
- Interference-based polysemy resolution (context resolves word meanings)
- Counterfactual dependency mapping (identify critical vs redundant operations)
- Swarm phase alignment (phase-coherent agents outperform count-based voting)

Fix flaky unit tests in quantum_decay and quantum_collapse modules.

99 total tests: 57 lib + 42 integration, all passing.

https://claude.ai/code/session_01B1NkbLDWYPaacS9miKsnvW
 2026-02-06 14:41:20 +00:00
Claude
b289e69032 feat: Add 4 exotic quantum-classical modules (decay, interference, QEC reasoning, syndrome diagnosis) 
quantum_decay: Embeddings decohere via quantum noise channels instead
of TTL deletion. Phase fidelity degrades smoothly before magnitude,
giving structured forgetfulness.

interference_search: Concepts represented as amplitude superpositions.
Retrieval uses constructive/destructive interference in complex space
instead of cosine similarity reranking.

reasoning_qec: Reasoning steps encoded as qubits with repetition-code
syndrome extraction. Detects structural incoherence in reasoning traces
via parity checks between adjacent steps.

syndrome_diagnosis: System components mapped to a quantum graph.
Fault injection + syndrome extraction localizes fragile components
and identifies fault propagation paths.

https://claude.ai/code/session_01B1NkbLDWYPaacS9miKsnvW
 2026-02-06 14:04:49 +00:00
Claude
99fdbf4a4c feat(wip): Add ruqu-exotic crate scaffold with quantum collapse and swarm interference 
Initial scaffold for 8 exotic quantum-classical hybrid algorithms:
- Quantum-shaped memory decay (embeddings decohere instead of deletion)
- Interference-based concept disambiguation (amplitude-space retrieval)
- Quantum-driven search collapse (superposition → measurement retrieval)
- Quantum-modulated agent swarms (interference instead of voting)
- Error-corrected reasoning traces (QEC on reasoning steps)
- Syndrome-based AI self diagnosis (fault localization via syndromes)
- Time-reversible memory (counterfactual debugging)
- Browser-native quantum reality checks (verification circuits)

Includes complete implementations for quantum_collapse and
swarm_interference modules. Remaining modules being implemented
by concurrent agents.

https://claude.ai/code/session_01B1NkbLDWYPaacS9miKsnvW
 2026-02-06 02:26:33 +00:00
github-actions[bot]
586529e74f chore: Update NAPI-RS binaries for all platforms 
Built from commit c66dd1de5a

  Platforms updated:
  - linux-x64-gnu
  - linux-arm64-gnu
  - darwin-x64
  - darwin-arm64
  - win32-x64-msvc

  🤖 Generated by GitHub Actions
 2026-02-06 02:15:25 +00:00
rUv
354391f2fa Merge pull request #153 from ruvnet/claude/temporal-tensor-compression-1r58N 2026-02-06 03:10:27 +01:00
Claude
2782fc6305 docs: Add ADR-QE-013 Deutsch's theorem proof with historical comparison 
Complete proof of Deutsch's theorem with phase kickback lemma and
step-by-step derivation. Compares five major formulations:

- Deutsch (1985): original probabilistic version (p=1/2)
- Deutsch-Jozsa (1992): deterministic n-bit, 2 queries
- Cleve-Ekert-Macchiavello-Mosca (1998): deterministic, single query
- Nielsen-Chuang (2000): canonical textbook presentation
- Calude (2006): de-quantization using higher-dimensional classical bits

Includes de-quantization critique (Abbott et al.), classical wave
analogies, and analysis of when quantum advantage is genuine vs
artifactual.

Adds 6 verification tests to ruqu-algorithms confirming all four
oracles produce deterministic correct results via the ruqu-core
simulator, including a phase-kickback amplitude-level check.

https://claude.ai/code/session_01B1NkbLDWYPaacS9miKsnvW
 2026-02-06 02:00:35 +00:00