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Resonant Fractal Nature Theory — a mathematical framework for coherent patterns on graph-coupled networks.

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© 2026 TNFR project — MIT licensed.DOI 10.5281/zenodo.17602860
docs
grammar
PHYSICS_VERIFICATION.md
API_CONTRACTS.mdCANONICAL_OZ_SEQUENCES.mdEMPIRICAL_CONFRONTATION_EEG.mdREADME.mdSTRUCTURAL_FIELDS_TETRAD.mdSTRUCTURAL_INTERFACE_THEORY.md
theory
APPLIED_STRUCTURAL_ANALYSIS.mdCATALOG_TYPE_HYGIENE_PROGRAMME.mdDISSIPATIVE_AND_OPEN_SYSTEMS.mdEMERGENT_ONTOLOGY.mdEXTENDED_FIELDS_AND_DERIVED_QUANTITIES.mdFUNDAMENTAL_THEORY.mdGAUGE_SYMMETRY_AND_UNIFICATION.mdGLOSSARY.mdMATHEMATICAL_DYNAMICS_BASIS.mdMINIMAL_STRUCTURAL_DEGREES.mdNUCLEUS_A_PRIME_LADDER_ATLAS.mdNUCLEUS_B_EQUIVARIANCE_OBSTRUCTIONS.mdPHYSICAL_REGIME_CORRESPONDENCES.mdREADME.mdREMESH_INFINITY_DERIVATION.mdSTRUCTURAL_CONSERVATION_THEOREM.mdSTRUCTURAL_OPERATORS.mdSTRUCTURAL_STABILITY_AND_DYNAMICS.mdTNFR_BSD_RESEARCH_NOTES.mdTNFR_HODGE_RESEARCH_NOTES.mdTNFR_NAVIER_STOKES_RESEARCH_NOTES.mdTNFR_NUMBER_THEORY.mdTNFR_P_VS_NP_RESEARCH_NOTES.mdTNFR_RIEMANN_RESEARCH_NOTES.mdTNFR_VARIATIONAL_PRINCIPLE.mdTNFR_YANG_MILLS_RESEARCH_NOTES.mdTNFR.pdfUNIFIED_GRAMMAR_RULES.md
factorization-lab
analysis
analyze_patterns.pycertificate_manifest.py
benchmarks
benchmark_analysis.pybenchmark_expansion_suite.pyfull_spectrum_factorization.pypaley_gap_extended.pypaley_gap_smoke.pytest_benchmark_suite.py
demos
experiment_contexts
exp_0b1663cd19b7.jsonexp_0bf0054b7474.jsonexp_75a4c8ca616a.jsonexp_848ee0fd1857.jsonexp_f6fe00562193.jsonexp_fdf3da424e1e.json
failure_telemetry_batch.pyfeedback_integration_demo.pyintegration_demo_snapshots.dbseed_management_integration_demo.pysnapshot_integration_demo.pytrajectory_143.jsontrajectory_77.jsontrajectory_89.jsontrajectory_91.jsontrajectory_97.json
docs
FACTORING_PLAYBOOK.mdFALSE_POSITIVE_TEST_SUITE.mdOPERATOR_CERTIFICATES.mdROADMAP.mdSPECTRAL_ROUTE.md
experiment_contexts
exp_cebe1d9e7d8e.json
notebooks
spectral_history.ipynb
scripts
run_false_positive_tests.py
tests
run_false_positive_test_suite.pytest_cli.pytest_false_positive_methodology.pytest_false_positive_verifier.pytest_feedback_integration.pytest_partitioning.pytest_seed_management.pytest_self_opt_support.pytest_snapshot_system.pytest_spectral_paley.pytest_verification_robustness.py
tnfr_factorization
__init__.pyapi.pycli.pyfailure_telemetry.pyfeedback_adapter.pyfeedback_integration.pypartitioning.pyself_opt_support.pyspectral_paley.py
demo_snapshots.dbLICENSE_SNAPSHOT.mdPACKAGE_SUMMARY.mdREADME.mdseed_management.pysnapshot_system.pytest_certificate_hashing.pytest_installation.pyverification_trajectory_77.json
benchmarks
analyze_tetrad_universality.pyb0star_alpha_canonical_product_graphs.pybenchmark_optimization_tracks.pybenchmark_utils.pyboundary_vibration.pybridge_primes_riemann.pychiral_involution.pycli_utils.pycoherence_projector_sense_index.pycommutant_bridge.pycomposition_arithmetic.pyconfinement_zones_test.pyconservation_law_validation.pydirected_paley_bridge.pyemergent_arithmetic_pulse.pyemergent_atom_dynamics.pyemergent_atomic_shells.pyemergent_base_dimension.pyemergent_dimension_dynamics.pyemergent_fractal_pulse.pyemergent_fractal_simplex_dimension.pyemergent_integers_symmetry.pyemergent_musical_nfr.pyemergent_nfr_geometry.pyemergent_nfr_where.pyemergent_rationals.pyemergent_rhythm.pyemergent_screening.pyemergent_shell_cardinals.pyemergent_shell_ordering.pyemergent_simplex_dimension.pyemergent_substrate_symmetry.pyequivariance_wall.pyexternal_phase_gate_validation.pyfield_methods_battery.pygolden_residue_remesh_bridge.pyintegrated_force_regime_study.pyinverse_spectrum_to_symmetry.pyk_phi_safety_demo.pykuramoto_farey_bridge.pymissing_piece_bridge.pymultichannel_interface_benchmark.pynavier_stokes_recipe_bridge.pynodal_propagator_residue_bridge.pyns_moment_hierarchy_cascade.pyoperational_irreducibility.pypaley_bridge.pyphase_curvature_investigation.pyphase_wall.pyphi_s_confinement_investigation.pyprimes_as_consequence.pypulse_phase_coherence_budget.pyREADME.mdremesh_infinity_riemann_baseline.pyremesh_infinity_riemann_composed.pyremesh_infinity_riemann_modified_graph.pyremesh_infinity_riemann_operator.pyremesh_infinity_riemann_spectral_basis.pyremesh_infinity_riemann_spectral_robustness.pyremesh_infinity_riemann_spectral.pyresidue_phase_vs_riemann.pystructural_interface_benchmark.pytemporal_interface_benchmark.pytetrad_results_aggregate.pyu2_destabilization_irreversibility.pyuniversality_clusters.pyxi_c_fast_experiment.py
primality-test
benchmarks
comprehensive_benchmark.py
docs
ADVANCED_INTEGRATION.mdmathematical_foundation.mdperformance_analysis.md
examples
advanced_examples.pybasic_usage.py
tnfr_primality
__init__.py__main__.pyadvanced_cli.pyadvanced_core.pycli.pyconstants.pycore.pyoptimized.py
MANIFEST.inPACKAGE_SUMMARY.mdREADME.mdRELEASE_NOTES_v1.0.mdsetup.pytest_installation.py
tests
core_physics
__init__.pytest_conservation_laws.pytest_delta_nfr_computation_paths.pytest_delta_nfr.pytest_dispersion_coherence_sign_invariance.pytest_emergent_constants_guard.pytest_lyapunov_operators.pytest_nodal_equation.pytest_structural_triad.py
data
replay_manifests
sample_run
_manifest_summary.json_manifest.json_partition_files.txt.gz
self_opt_validation
seed_alpha
paley.json
seed_beta
integration.json
seed_gamma
unknown.json
self_optimization
test_run
partitioned
test_run
test_run_p0.jsontest_run_p1.json
_manifest_summary.json_manifest.json
engines
test_pattern_discovery_manifest.pytest_self_optimization_engine.py
mathematics
__init__.pytest_autodiff.pytest_backends.pytest_dissipative_dynamics.pytest_epi.pytest_factory_patterns.pytest_metrics.pytest_navier_stokes_refounded.pytest_number_theory_canonical.pytest_operators.pytest_residue_networks.pytest_riemann_nodal_pulse.pytest_riemann_pulse_coherence.pytest_spaces.pytest_transforms.pytest_validator.py
operators
test_canonical_operators_modern.pytest_grammar_canon.pytest_grammar_canonical_consistency.pytest_grammar_dynamics.pytest_operator_contracts.pytest_operator_strategies.py
parallel
test_fractal_partition_manifest.py
physics
test_conservation_gauge_unification.pytest_dissipative_conservation.pytest_emergent_chemistry.pytest_field_cache_invalidation.pytest_gauge.pytest_phase_transition.pytest_signatures.pytest_spectral_conservation.pytest_structural_diffusion.pytest_structural_integrity.pytest_symplectic_substrate.pytest_tetrad_bounds.pytest_variational.pytest_yang_mills_closure.pytest_yang_mills_derivability.pytest_yang_mills_scaling.pytest_yang_mills_structural_gap.pytest_yang_mills_u6_sweep.py
scripts
test_run_self_opt_validation.pytest_run_self_optimization.py
sdk
__init__.pytest_simple_advanced.py
__init__.pyconftest.pyREADME.mdtest_breast_cancer_phase_gate_demo.pytest_classical_mechanics.pytest_distributed_fft.pytest_external_phase_gate_validation.pytest_factorization_entrypoint.pytest_multichannel_interface.pytest_nodal_optimizer.pytest_phase_gate_api.pytest_replay_register_manifest.pytest_signal_confrontation.pytest_structural_interface_api.pytest_structural_interface_baselines.pytest_structural_interface_benchmark.pytest_temporal_interface.pytest_vectorized_coherence_length_regression.pytest_wine_quality_phase_gate_demo.pyutils.py
examples
01_foundations
01_hello_world.py02_musical_resonance.py03_network_formation.py04_operator_sequences.py05_coherence_evolution.py06_network_topologies.py07_phase_transitions.py08_emergent_phenomena.py09_visualization_suite.py10_simplified_sdk_showcase.py
02_physics_regimes
11_classical_limit_comparison.py115_operator_contract_audit.py12_classical_mechanics_demo.py13_quantum_mechanics_demo.py14_uncertainty_and_interference.py15_train_crossing_demo.py17_conservation_law_demo.py26_gauge_structure_demo.py27_variational_principle_demo.py28_dissipative_systems_demo.py29_lyapunov_stability_demo.py30_self_optimization_demo.py31_mathematical_constants_basis.py33_complex_field_unification.py34_conservation_protocol_suite.py35_tetrad_irreducibility.py36_grammar_violation_detector.py37_operator_tetrad_synergy.py38_grammar_energy_landscape.py39_nodal_equation_decomposition.py
03_riemann_zeta
157_nodal_pulse_phase_attack.py41_von_mangoldt_zeta_demo.py42_riemann_zeros_as_resonances.py43_prime_ladder_hamiltonian_demo.py44_weil_explicit_formula_demo.py45_li_keiper_demo.py46_weil_tnfr_positivity_demo.py47_alpha_sweep_demo.py48_admissible_family_sweep_demo.py49_nodeaware_gauge_sweep_demo.py50_uniform_coercivity_demo.py51_adaptive_coercivity_demo.py52_paley_gap_coercivity_demo.py53_lyapunov_spectral_positivity_demo.py54_hilbert_polya_demo.py55_structural_zero_density_demo.py56_spectral_emergence_demo.py57_admissible_rescaling_demo.py58_oscillatory_correction_demo.py
04_riemann_L_twisted
59_dirichlet_l_function_demo.py60_dirichlet_l_continuation_demo.py61_dirichlet_l_hamiltonian_demo.py62_dirichlet_weil_explicit_formula_demo.py63_dirichlet_li_keiper_demo.py64_twisted_weil_positivity_demo.py65_twisted_alpha_sweep_demo.py66_twisted_admissible_family_sweep_demo.py67_twisted_nodeaware_gauge_sweep_demo.py68_twisted_hermite_family_demo.py69_twisted_coercivity_uniform_demo.py70_twisted_paley_gap_coercivity_demo.py71_twisted_lyapunov_spectral_demo.py72_twisted_hilbert_polya_demo.py73_twisted_structural_zero_density_demo.py74_twisted_spectral_emergence_demo.py75_twisted_admissible_rescaling_demo.py76_twisted_oscillatory_correction_demo.py
05_type_hygiene
77_remesh_infinity_residue_split_demo.py78_nuf_type_signature_demo.py79_epi_type_signature_demo.py80_phi_type_signature_demo.py81_dnfr_type_signature_demo.py82_remesh_window_type_signature_demo.py83_delta_phi_max_type_signature_demo.py84_coupling_weights_type_signature_demo.py85_tetrad_closure_signature_demo.py86_currents_closure_signature_demo.py87_aggregates_closure_signature_demo.py88_urules_consistency_signature_demo.py89_operator_catalog_discipline_signature_demo.py
06_navier_stokes
158_navier_stokes_two_face_refounded.py
07_number_theory
100_prime_families_orbits.py101_numbers_as_coupled_network.py102_nodal_flow_primes_equilibria.py116_nuf_emergent_prime_visibility.py146_primality_grammatical_inertness.py147_numbers_as_free_monoid_words.py148_capacity_arm_carries_von_mangoldt.py149_p14_is_the_capacity_arm_operator.py153_structural_frequency_rank_cyclotomy.py40_arithmetic_number_theory.py94_generative_number_construction.py95_primes_from_spectral_waves.py96_spectral_vibration_of_coherence.py97_goldbach_additive_multiplicative.pyemergent_chemistry_particles_demo.py
08_emergent_geometry
103_emergent_substrate_meets_riemann.py106_per_node_polarization_geometry.py107_orthogonal_structure_emergent_geometry.py108_emergent_field_generating_structure.py112_structure_predicts_coherence_flow.py113_overdamped_projection_bridge.py114_substrate_conserved_quantities.py117_emergent_geometry_residue_graph.py118_emergent_vs_classical_operator.py119_phase_sector_directed_residue.py120_symmetry_wall_substrate_vs_spectrum.py121_canonical_symmetry_break_negative.py122_factorization_phase_sector.py123_symmetry_sector_decomposition.py124_emergent_metric_fractal_consistency.py125_node_is_the_emergent_substrate.py126_two_layers_base_fiber.py127_base_is_emergent_not_imposed.py128_base_substrate_coemergence.py129_spectral_gap_base_fiber_clock.py130_operators_break_substrate_charges.py131_coemergent_loop_convergence.py132_geometric_phase_holonomy.py133_psi_topological_defects.py134_spectral_dimension_heat_kernel.py135_arrow_of_time_h_theorem.py136_heat_kernel_coefficients.py137_synchronization_transition.py138_structure_frequency_synchronization.py139_grammar_formal_language.py140_grammar_automaton.py141_grammar_rule_decomposition.py142_grammar_operator_quotient.py143_glyphic_function_sublanguage.py144_branching_combinator.py145_syntactic_monoid_starfree.py150_emergent_grammatical_pattern_parry.py151_grammar_in_emergent_geometry.py152_operator_contract_tetrahedron.py154_conductor_annotated_qr_spectrum.py155_ontological_position_of_numbers.py156_emergence_directness_law.py98_emergent_symplectic_substrate.py99_structural_diffusion.pyunified_fields_showcase.py
09_millennium
109_p_vs_np_coherence_synthesis.py110_bsd_rank_structural_pressure.py111_hodge_discrete_and_honest_gap.py
10_applications
159_empirical_confrontation_pipeline.py90_phase_gate_monitor_demo.py91_breast_cancer_phase_gate_demo.py92_wine_quality_phase_gate_demo.py93_structural_interface_demo.pypytorch_cuda_demo.py
README.md
scripts
replay
__init__.pyregister_manifest.py
__init__.pyREADME.mdrebuild_failure_manifest.pyrun_reproducible_benchmarks.pyrun_self_opt_validation.pyrun_self_optimization.pytnfr_is_prime.pyvalidate_conservation_law.pyverify_internal_references.py
src
core
__init__.pyevaluation.py
tnfr
backends
__init__.pyjax_backend.pynumpy_backend.pyoptimized_numpy.pyREADME.mdtorch_backend.py
cli
__init__.py__init__.pyiarguments.pyarguments.pyiexecution.pyexecution.pyiinteractive_validator.pyREADME.mdutils.pyutils.pyi
compat
__init__.pydataclass.pyjsonschema_stub.pymatplotlib_stub.pynumpy_stub.pyREADME.md
config
__init__.py__init__.pyiconstants.pyconstants.pyidefaults_core.pydefaults_init.pydefaults_metric.pydefaults.pyfeature_flags.pyfeature_flags.pyiglyph_constants.pyoperator_names.pyoperator_names.pyiphysics_derivation.pyprecision_modes.pypresets.pypresets.pyiREADME.mdsecurity.pythresholds.pytnfr_config.py
constants
__init__.py__init__.pyialiases.pyaliases.pyicanonical.pymetric.pymetric.pyioperational.py
core
__init__.pycontainer.pydefault_implementations.pyexceptions.pyinterfaces.pyREADME.md
dynamics
__init__.py__init__.pyiadaptation.pyadaptation.pyiadaptive_sequences.pyadaptive_sequences.pyiadelic.pyadvanced_cache_optimizer.pyadvanced_fft_arithmetic.pyaliases.pyaliases.pyibifurcation.pycache_aware_fft_engine.pycanonical.pycanonical.pyicomputational_hub.pycoordination.pycoordination.pyidistributed_fft.pydnfr.pydnfr.pyidynamic_limits.pyemergent_centralization.pyemergent_integration_engine.pyfeedback.pyfeedback.pyifft_backend.pyfft_cache_coordinator.pyfft_dispatchers.pyfft_engine.pyfft_workers.pyfused_dnfr.pyhomeostasis.pyhomeostasis.pyiintegrators.pyintegrators.pyilearning.pylearning.pyimetabolism.pymulti_modal_cache.pynbody_tnfr.pynbody.pynodal_optimizer.pyoptimization_orchestrator.pypropagation.pyREADME.mdruntime.pyruntime.pyisampling.pysampling.pyiselectors.pyselectors.pyiself_optimizing_engine.pyspectral_structural_fusion.pystructural_cache.pystructural_clip.pysymplectic.pyunified_backend.pyunified_mathematical_cache_orchestrator.py
engines
computation
__init__.pyfft_engine.pyunified_fft_engine.pyunified_gpu_system.py
constants
__init__.pycanonical.pyoperational.py
integration
__init__.pyemergent_integration.py
pattern_discovery
__init__.pymathematical_patterns.pymulti_modal_cache.py
self_optimization
__init__.pyengine.py
__init__.pyREADME.md
errors
__init__.pycontextual.py
factorization
__init__.py
flatten
README.md
gamma
README.md
glyph_history
README.md
glyph_runtime
README.md
immutable
README.md
initialization
README.md
io
README.md
math
__init__.pyfields_symbolic.pygrammar_validators.pyoptimizer.pyREADME.mdsymbolic.py
mathematics
__init__.pybackend.pybackend.pyidynamics.pydynamics.pyiepi.pyepi.pyigenerators.pygenerators.pyiliouville.pymetrics.pymetrics.pyinumber_theory.pyoperators_factory.pyoperators_factory.pyioperators.pyoperators.pyioptimized_primality.pyprojection.pyprojection.pyiREADME.mdruntime.pyruntime.pyispaces.pyspaces.pyispectral.pytransforms.pytransforms.pyiunified_cache.pyunified_numerical.pyzeta.py
metrics
__init__.py__init__.pyibuffer_cache.pybuffer_cache.pyicache_utils.pycoherence.pycoherence.pyicommon.pycommon.pyicore.pycore.pyidiagnosis.pydiagnosis.pyiemergence.pyexport.pyexport.pyiglyph_timing.pyglyph_timing.pyilearning_metrics.pylearning_metrics.pyilocal_coherence.pyphase_coherence.pyphase_compatibility.pyREADME.mdreporting.pyreporting.pyisense_index.pysense_index.pyitelemetry.pytetrad.pytrig_cache.pytrig_cache.pyitrig.pytrig.pyi
multiscale
__init__.pyhierarchical.pyREADME.md
navier_stokes
__init__.pyconservative_face.pyoperator.py
node
README.md
observers
README.md
operators
network_analysis
__init__.pysource_detection.py
postconditions
__init__.pymutation.py
preconditions
__init__.pycoherence.pydissonance.pyemission.pymutation.pyreception.pyresonance.py
strategies
__init__.pydefaults.pygpu_strategies.pystrategy.py
__init__.py__init__.pyialgebra.pycanonical_patterns.pycascade.pycoherence.pycontraction.pycoupling.pycycle_detection.pydefinitions_base.pydefinitions.pydefinitions.pyidissonance.pyemission.pyexpansion.pygrammar_application.pygrammar_canon.pygrammar_context.pygrammar_core.pygrammar_dynamics.pygrammar_error_factory.pygrammar_memoization.pygrammar_patterns.pygrammar_telemetry.pygrammar_types.pygrammar_u6.pygrammar_validate.pygrammar.pygrammar.pyihamiltonian.pyhealth_analyzer.pyintrospection.pyjitter.pyjitter.pyilifecycle.pymetabolism.pymetrics_basic.pymetrics_core.pymetrics_network.pymetrics_structural.pymetrics_u6.pymetrics.pymutation.pynodal_equation.pyoperator_contracts.pypattern_detection.pypatterns.pyREADME.mdreception.pyrecursivity.pyregistry.pyregistry.pyiremesh.pyremesh.pyiresonance.pyself_organization.pysilence.pystructural_units.pytransition.py
parallel
__init__.pyauto_scaler.pydistributed.pyengine.pymonitoring.pypartitioner.pyREADME.md
performance
guardrails.py
physics
__init__.py_helpers.pycalibration.pycanonical.pycell.pyclassical_mechanics.pyconservation_gauge_unification.pyconservation.pydissipative_conservation.pyemergent_chemistry.pyemergent_particles.pyextended.pyfields.pygauge.pyintegrity.pyinteractions.pylife.pylyapunov.pypatterns.pyphase_transition.pyquantum_mechanics.pyREADME.mdsignatures.pyspectral_conservation.pyspectral_metrics.pystructural_diffusion.pysymplectic_substrate.pytelemetry.pyunified.pyvariational.pyvectorized_ops.py
primality
__init__.py
recipes
__init__.pycookbook.pyREADME.md
riemann
__init__.pyadmissible_family_sweep.pyadmissible_rescaling.pyaggregates_closure_signature.pyalpha_sweep.pyanalytic_continuation_dirichlet.pyanalytic_continuation.pycoercivity_uniform.pycoupling_weights_type_signature.pycurrents_closure_signature.pydelta_phi_max_type_signature.pydirichlet_l.pydnfr_type_signature.pyepi_type_signature.pyhilbert_polya.pyli_keiper.pylyapunov_spectral_positivity.pynodal_pulse.pynodeaware_gauge_sweep.pynuf_type_signature.pyoperator_catalog_discipline_signature.pyoperator.pyoscillatory_correction.pypaley_gap_coercivity.pyphi_type_signature.pyprime_ladder_hamiltonian.pypulse_coherence.pyremesh_infinity_residue_split.pyremesh_window_type_signature.pyspectral_emergence.pystructural_zero_density.pytelemetry.pytetrad_closure_signature.pytwisted_admissible_family_sweep.pytwisted_admissible_rescaling.pytwisted_alpha_sweep.pytwisted_coercivity_uniform.pytwisted_hermite_family.pytwisted_hilbert_polya.pytwisted_li_keiper.pytwisted_lyapunov_spectral_positivity.pytwisted_nodeaware_gauge_sweep.pytwisted_oscillatory_correction.pytwisted_paley_gap_coercivity.pytwisted_prime_ladder_hamiltonian.pytwisted_spectral_emergence.pytwisted_structural_zero_density.pytwisted_weil_explicit_formula.pytwisted_weil_positivity.pyurules_consistency_signature.pyvon_mangoldt.pyweil_explicit_formula.pyweil_positivity.py
schemas
__init__.pygrammar.jsonREADME.md
sdk
__init__.py__init__.pyiadaptive_system.pyadaptive_system.pyibuilders.pybuilders.pyifluent.pyfluent.pyiREADME.mdself_opt.pysimple.pytemplates.pytemplates.pyiutils.py
security
__init__.pycrypto.pydatabase.pyREADME.mdsubprocess.pyvalidation.py
sequencing
__init__.pypatterns.pyREADME.md
services
__init__.pyorchestrator.pyREADME.md
sparse
__init__.pyREADME.mdrepresentations.py
structural
README.md
telemetry
__init__.pycache_metrics.pycache_metrics.pyiconstants.pynu_f.pynu_f.pyiREADME.mdunified_telemetry_system.pyverbosity.pyverbosity.pyi
tools
__init__.pydomain_templates.pyREADME.mdsequence_generator.pytnfr_is_prime_cli_optimized.pytnfr_is_prime_cli.py
topology
__init__.pyasymmetry.pyREADME.md
utils
cache_layers.pycache.pycache.pyicallbacks.pycallbacks.pyichunks.pychunks.pyidata.pydata.pyifast_diameter.pygraph.pygraph.pyiinit.pyinit.pyiio.pyio.pyinumeric.pynumeric.pyiREADME.mdtopology.pyunified_cache.py
validation
__init__.py__init__.pyiaggregator.pybase.pycompatibility.pycompatibility.pyiconfig.pygraph.pygraph.pyihealth.pyinput_validation.pyinterface_baselines.pyinvariants.pymultichannel_interface.pyphase_gate.pyREADME.mdrules.pyrules.pyiruntime.pyruntime.pyisequence_validator.pysignal_confrontation.pysoft_filters.pysoft_filters.pyispectral.pyspectral.pyistructural_interface.pytemporal_interface.pyunified_validation_system.pyvalidator.pywindow.pywindow.pyi
visualization
__init__.pycascade_viz.pyhierarchy.pyREADME.mdsequence_plotter.py
yang_mills
__init__.pyclosure.pyderivability.pyscaling.pystructural_gap.pyu6_sweep.py
__init__.py__init__.pyi_compat.py_version.py_version.pyialias.pyalias.pyibackend_config.pycache.pycache.pyiexecution.pyexecution.pyiflatten.pyflatten.pyigamma.pygamma.pyiglyph_history.pyglyph_history.pyiglyph_runtime.pyglyph_runtime.pyiimmutable.pyimmutable.pyiinitialization.pyinitialization.pyiio.pyio.pyilocking.pylocking.pyinode.pynode.pyiobservers.pyobservers.pyiontosim.pyontosim.pyipy.typedrng.pyrng.pyisecure_config.pyselector.pyselector.pyisense.pysense.pyistructural.pystructural.pyitokens.pytokens.pyitrace.pytrace.pyitypes.pytypes.pyiunits.pyunits.pyi
tetrad_evaluator.py
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FILE: src/tnfr/gamma.py

gamma.py

Gamma registry.

Source Code

python
"""Gamma registry."""

from __future__ import annotations

import hashlib
import logging
import math
from collections.abc import Mapping
from functools import lru_cache
from types import MappingProxyType
from typing import Any, Callable, NamedTuple

from .alias import get_theta_attr
from .constants import DEFAULTS
from .metrics.trig_cache import get_trig_cache
from .types import GammaSpec, NodeId, TNFRGraph
from .utils import (
    edge_version_cache,
    get_graph_mapping,
    get_logger,
    json_dumps,
    node_set_checksum,
)

logger = get_logger(__name__)

DEFAULT_GAMMA: Mapping[str, Any] = MappingProxyType(dict(DEFAULTS["GAMMA"]))

__all__ = (
    "kuramoto_R_psi",
    "gamma_none",
    "gamma_kuramoto_linear",
    "gamma_kuramoto_bandpass",
    "gamma_kuramoto_tanh",
    "gamma_harmonic",
    "GammaEntry",
    "GAMMA_REGISTRY",
    "eval_gamma",
    "eval_gamma_vectorized",
)


@lru_cache(maxsize=1)
def _default_gamma_spec() -> tuple[bytes, str]:
    dumped = json_dumps(dict(DEFAULT_GAMMA), sort_keys=True, to_bytes=True)
    hash_ = hashlib.blake2b(dumped, digest_size=16).hexdigest()
    return dumped, hash_


def _ensure_kuramoto_cache(G: TNFRGraph, t: float | int) -> None:
    """Cache ``(R, ψ)`` for the current step ``t`` using ``edge_version_cache``."""
    checksum = G.graph.get("_dnfr_nodes_checksum")
    if checksum is None:
        # reuse checksum from cached_nodes_and_A when available
        checksum = node_set_checksum(G)
    nodes_sig = (len(G), checksum)
    max_steps = int(G.graph.get("KURAMOTO_CACHE_STEPS", 1))

    def builder() -> dict[str, float]:
        R, psi = kuramoto_R_psi(G)
        return {"R": R, "psi": psi}

    key = (t, nodes_sig)
    entry = edge_version_cache(G, key, builder, max_entries=max_steps)
    G.graph["_kuramoto_cache"] = entry


def kuramoto_R_psi(G: TNFRGraph) -> tuple[float, float]:
    """Return ``(R, ψ)`` for Kuramoto order using θ from all nodes."""
    max_steps = int(G.graph.get("KURAMOTO_CACHE_STEPS", 1))
    trig = get_trig_cache(G, cache_size=max_steps)
    n = len(trig.theta)
    if n == 0:
        return 0.0, 0.0

    cos_sum = sum(trig.cos.values())
    sin_sum = sum(trig.sin.values())
    R = math.hypot(cos_sum, sin_sum) / n
    psi = math.atan2(sin_sum, cos_sum)
    return R, psi


def _kuramoto_common(
    G: TNFRGraph, node: NodeId, _cfg: GammaSpec
) -> tuple[float, float, float]:
    """Return ``(θ_i, R, ψ)`` for Kuramoto-based Γ functions.

    Reads cached global order ``R`` and mean phase ``ψ`` and obtains node
    phase ``θ_i``. ``_cfg`` is accepted only to keep a homogeneous signature
    with Γ evaluators.
    """
    cache = G.graph.get("_kuramoto_cache", {})
    R = float(cache.get("R", 0.0))
    psi = float(cache.get("psi", 0.0))
    th_val = get_theta_attr(G.nodes[node], 0.0)
    th_i = float(th_val if th_val is not None else 0.0)
    return th_i, R, psi


def _read_gamma_raw(G: TNFRGraph) -> GammaSpec | None:
    """Return raw Γ specification from ``G.graph['GAMMA']``.

    The returned value is the direct contents of ``G.graph['GAMMA']`` when
    it is a mapping or the result of :func:`get_graph_mapping` if a path is
    provided.  Final validation and caching are handled elsewhere.
    """

    raw = G.graph.get("GAMMA")
    if raw is None or isinstance(raw, Mapping):
        return raw
    return get_graph_mapping(
        G,
        "GAMMA",
        "G.graph['GAMMA'] is not a mapping; using {'type': 'none'}",
    )


def _get_gamma_spec(G: TNFRGraph) -> GammaSpec:
    """Return validated Γ specification caching results.

    The raw value from ``G.graph['GAMMA']`` is cached together with the
    normalized specification and its hash. When the raw value is unchanged,
    the cached spec is returned without re-reading or re-validating,
    preventing repeated warnings or costly hashing.
    """

    raw = G.graph.get("GAMMA")
    cached_raw = G.graph.get("_gamma_raw")
    cached_spec = G.graph.get("_gamma_spec")
    cached_hash = G.graph.get("_gamma_spec_hash")

    def _hash_mapping(mapping: GammaSpec) -> str:
        dumped = json_dumps(mapping, sort_keys=True, to_bytes=True)
        return hashlib.blake2b(dumped, digest_size=16).hexdigest()

    mapping_hash: str | None = None
    if isinstance(raw, Mapping):
        mapping_hash = _hash_mapping(raw)
        if (
            raw is cached_raw
            and cached_spec is not None
            and cached_hash == mapping_hash
        ):
            return cached_spec
    elif raw is cached_raw and cached_spec is not None and cached_hash is not None:
        return cached_spec

    if raw is None:
        spec = DEFAULT_GAMMA
        _, cur_hash = _default_gamma_spec()
    elif isinstance(raw, Mapping):
        spec = raw
        cur_hash = mapping_hash if mapping_hash is not None else _hash_mapping(spec)
    else:
        spec_raw = _read_gamma_raw(G)
        if isinstance(spec_raw, Mapping) and spec_raw is not None:
            spec = spec_raw
            cur_hash = _hash_mapping(spec)
        else:
            spec = DEFAULT_GAMMA
            _, cur_hash = _default_gamma_spec()

    # Store raw input, validated spec and its hash for future calls
    G.graph["_gamma_raw"] = raw
    G.graph["_gamma_spec"] = spec
    G.graph["_gamma_spec_hash"] = cur_hash
    return spec


# -----------------
# Helpers
# -----------------


def _gamma_params(cfg: GammaSpec, **defaults: float) -> tuple[float, ...]:
    """Return normalized Γ parameters from ``cfg``.

    Parameters are retrieved from ``cfg`` using the keys in ``defaults`` and
    converted to ``float``. If a key is missing, its value from ``defaults`` is
    used. Values convertible to ``float`` (e.g. strings) are accepted.

    Example
    -------
    >>> beta, R0 = _gamma_params(cfg, beta=0.0, R0=0.0)
    """

    return tuple(float(cfg.get(name, default)) for name, default in defaults.items())


# -----------------
# Canonical Γi(R)
# -----------------


def gamma_none(G: TNFRGraph, node: NodeId, t: float | int, cfg: GammaSpec) -> float:
    """Return ``0.0`` to disable Γ forcing for the given node."""

    return 0.0


def _gamma_kuramoto(
    G: TNFRGraph,
    node: NodeId,
    cfg: GammaSpec,
    builder: Callable[..., float],
    **defaults: float,
) -> float:
    """Construct a Kuramoto-based Γ function.

    ``builder`` receives ``(θ_i, R, ψ, *params)`` where ``params`` are
    extracted from ``cfg`` according to ``defaults``.
    """

    params = _gamma_params(cfg, **defaults)
    th_i, R, psi = _kuramoto_common(G, node, cfg)
    return builder(th_i, R, psi, *params)


def _builder_linear(th_i: float, R: float, psi: float, beta: float, R0: float) -> float:
    return beta * (R - R0) * math.cos(th_i - psi)


def _builder_bandpass(th_i: float, R: float, psi: float, beta: float) -> float:
    sgn = 1.0 if math.cos(th_i - psi) >= 0.0 else -1.0
    return beta * R * (1.0 - R) * sgn


def _builder_tanh(
    th_i: float, R: float, psi: float, beta: float, k: float, R0: float
) -> float:
    return beta * math.tanh(k * (R - R0)) * math.cos(th_i - psi)


def gamma_kuramoto_linear(
    G: TNFRGraph, node: NodeId, t: float | int, cfg: GammaSpec
) -> float:
    """Linear Kuramoto coupling for Γi(R).

    Formula: Γ = β · (R - R0) · cos(θ_i - ψ)
      - R ∈ [0,1] is the global phase order.
      - ψ is the mean phase (coordination direction).
      - β, R0 are parameters (gain/threshold).

    Use: reinforces integration when the network already shows phase
    coherence (R>R0).
    """

    return _gamma_kuramoto(G, node, cfg, _builder_linear, beta=0.0, R0=0.0)


def gamma_kuramoto_bandpass(
    G: TNFRGraph, node: NodeId, t: float | int, cfg: GammaSpec
) -> float:
    """Compute Γ = β · R(1-R) · sign(cos(θ_i - ψ))."""

    return _gamma_kuramoto(G, node, cfg, _builder_bandpass, beta=0.0)


def gamma_kuramoto_tanh(
    G: TNFRGraph, node: NodeId, t: float | int, cfg: GammaSpec
) -> float:
    """Saturating tanh coupling for Γi(R).

    Formula: Γ = β · tanh(k·(R - R0)) · cos(θ_i - ψ)
      - β: coupling gain
      - k: tanh slope (how fast it saturates)
      - R0: activation threshold
    """

    return _gamma_kuramoto(G, node, cfg, _builder_tanh, beta=0.0, k=1.0, R0=0.0)


def gamma_harmonic(G: TNFRGraph, node: NodeId, t: float | int, cfg: GammaSpec) -> float:
    """Harmonic forcing aligned with the global phase field.

    Formula: Γ = β · sin(ω·t + φ) · cos(θ_i - ψ)
      - β: coupling gain
      - ω: angular frequency of the forcing
      - φ: initial phase of the forcing
    """
    beta, omega, phi = _gamma_params(cfg, beta=0.0, omega=1.0, phi=0.0)
    th_i, _, psi = _kuramoto_common(G, node, cfg)
    return beta * math.sin(omega * t + phi) * math.cos(th_i - psi)


class GammaEntry(NamedTuple):
    """Lookup entry linking Γ evaluators with their preconditions."""

    fn: Callable[[TNFRGraph, NodeId, float | int, GammaSpec], float]
    needs_kuramoto: bool


# ``GAMMA_REGISTRY`` associates each coupling name with a ``GammaEntry`` where
# ``fn`` is the evaluation function and ``needs_kuramoto`` indicates whether
# the global phase order must be precomputed.
GAMMA_REGISTRY: dict[str, GammaEntry] = {
    "none": GammaEntry(gamma_none, False),
    "kuramoto_linear": GammaEntry(gamma_kuramoto_linear, True),
    "kuramoto_bandpass": GammaEntry(gamma_kuramoto_bandpass, True),
    "kuramoto_tanh": GammaEntry(gamma_kuramoto_tanh, True),
    "harmonic": GammaEntry(gamma_harmonic, True),
}


def eval_gamma(
    G: TNFRGraph,
    node: NodeId,
    t: float | int,
    *,
    strict: bool = False,
    log_level: int | None = None,
) -> float:
    """Evaluate Γi for ``node`` using ``G.graph['GAMMA']`` specification.

    If ``strict`` is ``True`` exceptions raised during evaluation are
    propagated instead of returning ``0.0``. Likewise, if the specified
    Γ type is not registered a warning is emitted (or ``ValueError`` in
    strict mode) and ``gamma_none`` is used.

    ``log_level`` controls the logging level for captured errors when
    ``strict`` is ``False``. If omitted, ``logging.ERROR`` is used in
    strict mode and ``logging.DEBUG`` otherwise.
    """
    spec = _get_gamma_spec(G)
    spec_type = spec.get("type", "none")
    reg_entry = GAMMA_REGISTRY.get(spec_type)
    if reg_entry is None:
        msg = f"Unknown GAMMA type: {spec_type}"
        if strict:
            raise ValueError(msg)
        logger.warning(msg)
        entry = GammaEntry(gamma_none, False)
    else:
        entry = reg_entry
    if entry.needs_kuramoto:
        _ensure_kuramoto_cache(G, t)
    try:
        return float(entry.fn(G, node, t, spec))
    except (ValueError, TypeError, ArithmeticError) as exc:
        level = (
            log_level
            if log_level is not None
            else (logging.ERROR if strict else logging.DEBUG)
        )
        logger.log(
            level,
            "Failed to evaluate Γi for node %s at t=%s: %s: %s",
            node,
            t,
            exc.__class__.__name__,
            exc,
        )
        if strict:
            raise
        return 0.0


def eval_gamma_vectorized(
    G: TNFRGraph,
    theta_arr: Any,
    t: float,
    np_mod: Any,
) -> Any:
    """Evaluate Γi for all nodes using vectorized operations.

    Args:
        G: The graph (for gamma spec).
        theta_arr: NumPy array of node phases (θ).
        t: Current time.
        np_mod: The NumPy module.

    Returns:
        NumPy array of Γ values.
    """
    spec = _get_gamma_spec(G)
    spec_type = spec.get("type", "none")

    if spec_type == "none":
        return np_mod.zeros_like(theta_arr)

    # Precompute Kuramoto order if needed
    # For vectorized, we assume theta_arr contains all nodes in order
    # so we can compute R and psi directly from it.

    R = 0.0
    psi = 0.0
    needs_kuramoto = spec_type.startswith("kuramoto") or spec_type == "harmonic"

    if needs_kuramoto:
        # Using real arithmetic for safety/speed
        cos_sum = np_mod.sum(np_mod.cos(theta_arr))
        sin_sum = np_mod.sum(np_mod.sin(theta_arr))
        n = theta_arr.size
        if n > 0:
            R = np_mod.hypot(cos_sum, sin_sum) / n
            psi = np_mod.arctan2(sin_sum, cos_sum)

    # Dispatch
    if spec_type == "kuramoto_linear":
        beta, R0 = _gamma_params(spec, beta=0.0, R0=0.0)
        # beta * (R - R0) * cos(theta - psi)
        return beta * (R - R0) * np_mod.cos(theta_arr - psi)

    elif spec_type == "kuramoto_bandpass":
        (beta,) = _gamma_params(spec, beta=0.0)
        # beta * R * (1 - R) * sign(cos(theta - psi))
        cos_diff = np_mod.cos(theta_arr - psi)
        # Match scalar behavior: sgn=1 if cos>=0 else -1.
        sgn = np_mod.where(cos_diff >= 0.0, 1.0, -1.0)
        return beta * R * (1.0 - R) * sgn

    elif spec_type == "kuramoto_tanh":
        beta, k, R0 = _gamma_params(spec, beta=0.0, k=1.0, R0=0.0)
        # beta * tanh(k * (R - R0)) * cos(theta - psi)
        return beta * np_mod.tanh(k * (R - R0)) * np_mod.cos(theta_arr - psi)

    elif spec_type == "harmonic":
        beta, omega, phi = _gamma_params(spec, beta=0.0, omega=1.0, phi=0.0)
        # beta * sin(omega * t + phi) * cos(theta - psi)
        return beta * np_mod.sin(omega * t + phi) * np_mod.cos(theta_arr - psi)

    else:
        logger.warning(f"Vectorized gamma not implemented for {spec_type}, using zeros")
        return np_mod.zeros_like(theta_arr)