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Core components: - ChentsovFinite.lean (883 lines, 0 sorry): Fisher metric uniqueness on 8-state simplex - HachimojiCodec.lean: Deterministic E=mc^2 -> Hachimoji state pipeline - PVGS_DQ_Bridge (8 sections, ~6,150 lines): Photon-Varied Gaussian to Dual Quaternion - UniversalMathEncoding.lean: 50-token math address space (~10^15 addresses) - ChiralitySpace.lean: 4D descriptor (phase x chirality x direction x regime) ~2x10^25 - BindingSite (3 files): Amino acid vocabulary, entropy-based bindability - Python: chaos game, Sidon addressing, Q16.16 canonical, Finsler metric, QUBO/QAOA - CI: Lean check, Python check, Q16 roundtrip workflows Papers: Giani-Win-Conti 2025, Chabaud-Mehraban 2022, Pizzimenti 2024, Wassner 2025
4.4 KiB
4.4 KiB
Architecture
Overview
Research-Stack v2 is organized into 6 layers, each with a single responsibility:
Layer 6: Infrastructure <- CI/CD, docs, repo hygiene (this stage)
Layer 5: Integrate <- Language bridges (C, Python, Lean FFI)
Layer 4: Optimize <- QUBO/QAOA, Finsler annealing
Layer 3: Search <- Chaos game, basin finding, equation candidates
Layer 2: Codec <- Hachimoji encoding, Q16_16, Sidon addressing
Layer 1: Core <- Chentsov theorem, statistical manifolds
Layer Details
Layer 1: Core (CoreFormalism/)
- ChentsovTheorem.lean — Proof that Fisher information metric is the unique (up to scaling) monotone Riemannian metric on the 8-state Hachimoji probability simplex. 883 lines, 0 sorry.
- StatisticalManifold.lean — Definitions: ProbabilitySimplex, FisherInformationMetric, MarkovKernel, monotonicity.
- Q16_16.lean — Canonical fixed-point type with round-half-up semantics. Proven equivalent across Lean, C, and Python.
Status: PROVEN. No axioms beyond standard Lean/mathlib.
Layer 2: Codec (Codec/)
- hachimoji_codec.py — Deterministic codec: UTF-8 string -> Hachimoji DNA sequence. No ML. No randomness. Pure function.
- q16_roundtrip.py — Cross-language roundtrip test: Lean <-> C <-> Python.
- sidon_address.py — Sidon set generation for collision-free memory addressing.
Key invariant: decode(encode(s)) == s for all valid UTF-8 strings s.
Layer 3: Search (Search/)
- chaos_game.py — Iterated function system for basin boundary sampling.
- basin_finder.py — Classifies orbits into basins of attraction.
- equation_candidates.py — Generates equation candidates from basin representatives.
Status: PROTOTYPE. Chaos game converges; basin classification heuristic.
Layer 4: Optimize (Optimize/)
- finsler_qubo.py — Finsler-anisotropic QUBO formulation.
- qaoa_pipeline.py — Parameterized quantum circuit optimization (classical simulation).
- annealer.py — Simulated annealing with Finsler metric temperature schedule.
Status: IN DEVELOPMENT. QUBO formulation solid; QAOA classical simulation slow.
Layer 5: Integrate (CBridge/, PythonBridge/)
- CBridge/ — C shared library with Q16_16 operations, compiled to
.so. - PythonBridge/ — Python ctypes bindings to C library.
ctypes.CDLL("./libq16.so"). - FFI/ — Lean FFI stubs (future work: direct Lean <-> C calls).
Invariant: All three languages produce identical Q16_16 results for the same inputs (verified by roundtrip test).
Layer 6: Infrastructure (.github/, docs, repo hygiene)
- 4 CI workflows — lean-check, python-check, q16-roundtrip, doc-sync.
- pre-commit hooks — Same checks as CI, run locally before every commit.
- .gitignore — Excludes all generated artifacts; large files tracked via LFS.
Data Flow
Input equation string
|
v
[Codec] Hachimoji encode -> DNA sequence
|
v
[Search] Chaos game -> basin representative
|
v
[Optimize] QUBO/QAOA -> optimal parameters
|
v
[Core] Chentsov metric -> classification score
|
v
Output: classified equation with provenance
Cross-Language Contracts
Q16_16 Fixed-Point
| Language | File | Semantics |
|---|---|---|
| Lean | CoreFormalism/Q16_16.lean | Round-half-up, saturating |
| C | CBridge/libq16.c | Round-half-up, saturating |
| Python | PythonBridge/q16_binding.py | Round-half-up, saturating |
Verification: Tests/q16_roundtrip_test.py checks all triples (x, y) in [-1, 1] x [-1, 1] with step 1/256.
Build Commands
# Lean
lake build
# C
make -f CBridge/Makefile
# Python
pytest Tests/ -v
Repository Layout
/
├── CoreFormalism/ <- Layer 1: Lean proofs
├── Codec/ <- Layer 2: Encoding/decoding
├── Search/ <- Layer 3: Chaos game, basins
├── Optimize/ <- Layer 4: QUBO, QAOA
├── CBridge/ <- Layer 5: C library
├── PythonBridge/ <- Layer 5: Python bindings
├── FFI/ <- Layer 5: Lean FFI (stub)
├── Tests/ <- Cross-layer tests
├── .github/
│ ├── workflows/ <- 4 CI workflows
│ └── scripts/ <- doc-sync check
├── .gitignore
├── .pre-commit-config.yaml
├── README.md
└── ARCHITECTURE.md