Research-Stack/6-Documentation/wiki/Glossary.md
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Glossary

Source: ../docs/GLOSSARY.md · ../docs/VOCABULARY_LOCK.md · ../CONCEPTS.md


Core Formalism

Term Definition
bind The single universal primitive: (A × B × Metric) → Bind A B. All algorithms collapse to this. Five allowed classes: informational, geometric, thermodynamic, physical, control.
Q16_16 32-bit fixed-point (UInt32, 0x00010000 = 1.0). Mixed integer + fraction. Last-resort only.
Q0_16 16-bit fixed-point (UInt16), pure fraction [-1, 1]. Default for dimensionless quantities.
Q0_64 64-bit 0D scalar [0, 1). Universal scalar for cross-substrate communication.
FixedPoint Formal module (Semantics.FixedPoint) defining both Q16_16 and Q0_16 arithmetic.
AMMR Algebraic Merkle Mountain Range — hierarchical cryptographic accumulator over equation forest nodes.
AVMR Adaptive Vector Manifest Roll-up — hierarchical summary of vector manifolds across substrates.
O-AMMR Ordered AMMR — AMMR with explicit dependency ordering on the equation DAG.
BraidField Path-sensitive field B(t) through which information carriers are rotated to expose phase/charge instability.
BracketedCalculus Gap-conserving bound calculus: ⟨l, u, v, g_l, g_u⟩. Substrate #35.

Geometry

Term Definition
PIST Perfectly Imperfect Square Theory — witness/audit surface. States: (k, t) ∈ ℕ². Invariant: mass conservation.
DIAT Dynamic Integer-Address Transform — shell coordinate system for energy cell quantization.
NUVMAP Non-Uniform Variable Mapping — 2D spectral projection (u, v).
GWL Gravitational-Wave-Like topology — 5-factor rotational coupling geometry (θ, φ, τ, χ, proximity).
S3C Shell/Topological Codec — energy cell quantization into n² + m integer shells.
SSMS_nD Nested self-similar manifold shell — recursive fractal dimension descent.
Goxel Geometric voxel — N-space shape primitive.
SolitonTensor Nonlinear persistent wave on the manifold with conserved identity (Sine-Gordon energy).
TorsionalPIST Quaternion-valued PIST extension: (q₁, q₂, q₃) ∈ ℚ³.

Compression

Term Definition
GCCL Geometric, Cognitive, and Compression Law — the unified law stack spanning all substrates.
MISC Manifold-Invariant Shell Compression — compression via shell coordinate encoding on the manifold.
GENSIS Genetic-Natured N-Space universal encoding substrate — MISC extended with biological/genetic coding systems.
DeltaGCL Differential GCL — compact representation of differences between successive manifold states.
PTOS Photonic Topological Optical Storage — photon-pulse-based read/write of crystal substrate topology.
KOT Kinetic Operation Token — accounting layer for action cost. Every transformation pays.
VLE Variable-Length Encoding — adaptive symbol encoding based on frequency/basin statistics.
Δφγ Delta-phase-gamma-kappa-lambda — complete differential encoding across phase, gamma, curvature, and wavelength.

Biology / Neural

Term Definition
SpikingNeuron Izhikevich model: (v, u, I) with membrane potential dynamics.
STDP Spike-Timing-Dependent Plasticity: Δw = A·exp(-Δt/τ).
GeneticCode Codon → amino acid mapping with 30+ variant tables. 64 codons, 20+ AAs.
CodonOptimization Codon reassignment driven by CAI (Codon Adaptation Index).
DNAmethylation Epigenetic mark — methyl group addition to cytosine.
HistoneMod Histone tail modification encoding regulatory state.
Prion Misfolded protein acting as conformational template — Reverse-Sisyphus structural memory.

Thermodynamics

Term Definition
Trixal Multi-axis thermodynamic quality state: (thermal, work, irrev). Compression modeled as a heat engine.
HomeostaticGovernor Control dynamics: pressure evolution p_{t+1} = γ·p_t + s_t.
DynamicCanal Adaptive canal that deforms under pressure.
Landauer Principle: minimum energy kT·ln2 per bit erasure.
HyperFlow Navier-Stokes on the manifold: ∂F/∂t = ν∇²F - (F·∇)F + ∇p.
CognitiveLoad 5-component load model: (L_I, L_E, L_G, L_R, L_M).
Reverse-Sisyphus Property: dC/dt = f(W, C) AND E[W(t+Δ)] < E[W(t)] — work reduces future work.

Security

Term Definition
AngrySphinx Exponential energy asymmetry: E_attack = n ⟹ E_solve ≥ 2^n. NaN boundary at F → 0.
FAMM Frustration-Aligned Memory Management — stores failed/partial/successful routes as basin/scar signals.
FrustrationTensor Triadic frustration tensor (i, j, k) storing route constraint violation.
NaNBoundary Limit surface where frustration metric F → 0, returning undefined.
PodAccumulator Distributed attestation accumulator collecting PIST witness signatures.
Waveprobe Hysteretic mode-switch security sensor with barriers B_lock > B_warn > B_recover.

Semantics

Term Definition
CrossDimensionalFilter Semantic filter operating across dimensions via 12 primal primes.
SemanticPrime One of 12 irreducible meaning atoms.

The 12 Semantic Primes:

# Prime Description
1 Identity Self-reference, what a thing is
2 Agent Active entity, actor
3 Object Passive entity, thing acted upon
4 Action Event, process, doing
5 State Condition, property, mode
6 Relation Connection, link, between
7 Good Positive valence, desirable
8 Bad Negative valence, undesirable
9 Want Desire, intent, goal
10 Know Knowledge, belief, awareness
11 Place Location, space, where
12 Time Temporal, when, duration

Meta

Term Definition
Metatype Trajectory quality invariant — formal classification of agent trajectory behavior patterns.
UMUP-λ Universal Manifold Update Protocol — λ-parameterized update rule across all manifolds.
IRP Invariant Receipt Protocol — auditable proof that a transition preserved the declared invariant.
SettlementState Ladder: SEED → FORMING → STABLE → CRYSTALLIZED → COMPRESSED.
PromotionLadder BEAUTIFUL_PROVISIONAL → CALIBRATED_ENGINEERING_DELTA → REVIEWED → VERIFIED.
BLS Bounded Lawful Surface — set of transitions expressible under declared constraints.
FNWH Formal Non-Wave Harmonic — underlying harmonic framework for Burgers/Braiding proofs.

Infrastructure

Term Definition
ENE Endless Node Edges — distributed credential and node management with gossip protocol.
OTOM Ordered Transformation & Orchestration Model — unifying label for all Research Stack work.
NII Native Integer ISA — executable control layer (Semantics.ISA).
Substrate A mathematical layer with: state space, metric, transition, invariant, guard.
FPGA_Warden FPGA-based Warden node executing stark_trace validation on burned DAG-LUTs.
CacheSieve 5×2-bit symbol classifier (PASS/HOLD/REJECT).
MORE_FAMM Capability-based memory isolation via BRAM segments.

The 36 USTSM Substrates

# Substrate Invariant
1 PIST/DIAT Shell mass conservation
2 GWL Rotational dE/dt ≤ 0
3 AngrySphinx E_solve ≥ 2^n
4 CrossDimensionalFilter semantic prime preservation
5 SSMS_nD self-similarity invariant
6 FAMM Frustration frustration monotonic
7 SolitonTensor soliton identity
8 TorsionalPIST quaternion norm
9 HybridTSMPISTTorus positive mass only
10 HyperFlow fixed point convergence
11 Q16_16 FixedPoint totality (no NaN)
12 Q0_64 0D Scalar stay in [0,1)
13 Trixal Thermodynamic irrev < threshold
14 Cognitive Load efficiency ≥ 0
15 Homeostatic Governor pressure bounded
16 Genetic Code codon validity
17 Genomic Compression field invariant
18 Codon Optimization CAI monotonic
19 Delta GCL delta(m,m) = empty
20 Spiking Neuron v < 30 mV until fire
21 STDP Synaptic bounds conserved
22 Manifold Networking curvature bounded
23 Quantum Geometry observational fit
24 GWL Throat holonomy bounded
25 Braid Field mergeDebt ≤ threshold
26 Adaptation isLawful, params in range
27 DynamicCanal width ≥ 0
28 CompressionMechanics order contracts
29 PIST Bridge O(1) per step
30 Waveprobe B_lock > B_warn > B_recover
31 MasterEquation probability sum = 1
32 CompressionControl canonicalized
33 CompressionEvidence energy decomposes
34 ASICTopology operation admissible
35 BracketedCalculus g_l + g_u = u l
36 CacheSieve sieve invariant

Quick Reference: Framework Hierarchy

GCCL = Law Stack (what must be preserved)
  │
  ├── MISC = Compression Engine (how it runs)
  │     Uses: PIST shells, GWL coupling, Cognitive Router, Trixal Verify
  │     │
  │     └── GENSIS = N-D Extension (genetic codes + hypercubic shells)
  │
  └── USTSM = Substrate Census (36 substrates under one Q0_64 scalar)

Quick Reference: Data Flow

Raw Data → PIST Remap → GWL Coupling → Cognitive Router → Delta GCL → Trixal Verify → Homeostatic Update → Output + Receipt

For the full authoritative glossary with additional entries, see ../docs/GLOSSARY.md.