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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: examples/02_physics_regimes/29_lyapunov_stability_demo.py

29_lyapunov_stability_demo.py

TNFR Lyapunov Stability & Structural Lifecycle.

Demonstrates the formal Lyapunov stability proof for TNFR dynamics: grammar rule U2 guarantees that operator sequences are net-contractive on the structural energy functional E[G].

Key results shown:

  1. Per-operator energy bounds: all 13 operators classified (stabiliser / destabiliser / neutral / mixed) with contraction/expansion rates
  2. Sequence Lyapunov proof: grammar-compliant sequences have product of energy multipliers <= 1 (net-contractive)
  3. Spectral gap analysis: algebraic connectivity, relaxation time, mixing
  4. Operator convergence: combined Lyapunov + spectral analysis
  5. Grammar U2 in action: comparing compliant vs non-compliant sequences
  6. Life emergence detection: autopoietic coefficient and vitality index

See: theory/STRUCTURAL_STABILITY_AND_DYNAMICS.md for the full treatment.

Source Code

python
"""TNFR Lyapunov Stability & Structural Lifecycle.

Demonstrates the formal Lyapunov stability proof for TNFR dynamics:
grammar rule U2 guarantees that operator sequences are net-contractive
on the structural energy functional E[G].

Key results shown:
1. Per-operator energy bounds: all 13 operators classified (stabiliser /
   destabiliser / neutral / mixed) with contraction/expansion rates
2. Sequence Lyapunov proof: grammar-compliant sequences have product
   of energy multipliers <= 1 (net-contractive)
3. Spectral gap analysis: algebraic connectivity, relaxation time, mixing
4. Operator convergence: combined Lyapunov + spectral analysis
5. Grammar U2 in action: comparing compliant vs non-compliant sequences
6. Life emergence detection: autopoietic coefficient and vitality index

See: theory/STRUCTURAL_STABILITY_AND_DYNAMICS.md for the full treatment.
"""

from __future__ import annotations

import os
import sys

sys.path.insert(0, os.path.join(os.path.dirname(__file__), "..", "..", "src"))

import networkx as nx
import numpy as np

from tnfr.constants import inject_defaults
from tnfr.physics.life import (
    compute_autopoietic_coefficient,
    compute_self_generation,
    compute_stability_margin,
    detect_life_emergence,
)
from tnfr.physics.lyapunov import (
    OPERATOR_LYAPUNOV_BOUNDS,
    EnergyClass,
    analyze_operator_convergence,
    analyze_spectral_gap,
    compute_operator_energy_bound,
    get_bound,
    prove_sequence_lyapunov,
    verify_operator_lyapunov,
)

SEED = 42


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


def _build_graph(n: int = 20, seed: int = SEED) -> nx.Graph:
    """Build a Watts-Strogatz network with canonical TNFR attributes."""
    rng = np.random.default_rng(seed)
    G = nx.watts_strogatz_graph(n, 4, 0.3, seed=seed)
    inject_defaults(G)
    for node in G.nodes():
        G.nodes[node]["EPI"] = float(rng.uniform(0.5, 2.0))
        G.nodes[node]["nu_f"] = float(rng.uniform(0.5, 2.0))
        G.nodes[node]["phase"] = float(rng.uniform(0, 2 * np.pi))
        G.nodes[node]["delta_nfr"] = float(rng.uniform(-0.3, 0.3))
    return G


# ------------------------------------------------------------------
# 1. Per-operator Lyapunov bounds — the full registry
# ------------------------------------------------------------------


def demo_operator_bounds() -> None:
    """Display formal energy bounds for all 13 canonical operators."""
    print("=" * 72)
    print("1. PER-OPERATOR LYAPUNOV BOUNDS — all 13 canonical operators")
    print("=" * 72)

    # Group by energy class
    by_class: dict[EnergyClass, list] = {c: [] for c in EnergyClass}
    for name, bound in OPERATOR_LYAPUNOV_BOUNDS.items():
        by_class[bound.energy_class].append(bound)

    for cls in [
        EnergyClass.STABILISER,
        EnergyClass.DESTABILISER,
        EnergyClass.NEUTRAL,
        EnergyClass.MIXED,
    ]:
        ops = by_class[cls]
        if not ops:
            continue
        print(f"\n  {cls.value.upper()} operators:")
        print(f"  {'Name':20s}  {'Glyph':6s}  {'Rate':>10s}  Factor")
        print(f"  {'─' * 20}  {'─' * 6}  {'─' * 10}  {'─' * 20}")
        for b in sorted(ops, key=lambda x: x.contraction_rate, reverse=True):
            rate_label = {
                EnergyClass.STABILISER: f"ρ={b.contraction_rate:.4f}",
                EnergyClass.DESTABILISER: f"κ={b.contraction_rate:.4f}",
                EnergyClass.NEUTRAL: f"ε={b.contraction_rate:.4f}",
                EnergyClass.MIXED: f"κ={b.contraction_rate:.4f}",
            }[cls]
            print(
                f"  {b.operator_name:20s}  {b.glyph:6s}  {rate_label:>10s}  "
                f"{b.glyph_factor_name}={b.glyph_factor_value:.4f}"
            )
    print()


# ------------------------------------------------------------------
# 2. Sequence Lyapunov proof — grammar-compliant vs non-compliant
# ------------------------------------------------------------------


def demo_sequence_proof() -> None:
    """Prove that grammar-compliant sequences are net-contractive."""
    print("=" * 72)
    print("2. SEQUENCE LYAPUNOV PROOF — U2 guarantees net-contractivity")
    print("=" * 72)

    sequences = {
        "Bootstrap (AL, UM, IL)": ["Emission", "Coupling", "Coherence"],
        "Explore (OZ, ZHIR, IL)": ["Dissonance", "Mutation", "Coherence"],
        "Stabilize (IL, SHA)": ["Coherence", "Silence"],
        "Propagate (RA, UM)": ["Resonance", "Coupling"],
        "Full cycle": [
            "Emission",
            "Coupling",
            "Coherence",
            "Dissonance",
            "Mutation",
            "Coherence",
            "Resonance",
            "Coupling",
            "Coherence",
            "Silence",
        ],
        "VIOLATION: OZ without IL": ["Dissonance", "Silence"],
        "VIOLATION: OZ, VAL, no stabilizer": [
            "Dissonance",
            "Expansion",
            "Silence",
        ],
    }

    for label, seq in sequences.items():
        proof = prove_sequence_lyapunov(seq)
        status = "STABLE" if proof.is_net_contractive else "UNSTABLE"
        print(f"\n  {label}")
        print(f"    Operators:    {' → '.join(proof.operators)}")
        print(
            f"    Multipliers:  {' × '.join(f'{m:.4f}' for m in proof.energy_multipliers)}"
        )
        print(f"    Product:      {proof.cumulative_product:.6f}")
        print(
            f"    Contractive?  {status}  "
            f"(net contraction = {proof.net_contraction:+.4f})"
        )
    print()


# ------------------------------------------------------------------
# 3. Spectral gap analysis
# ------------------------------------------------------------------


def demo_spectral_gap() -> None:
    """Compute spectral gap and derived time-scales for different topologies."""
    print("=" * 72)
    print("3. SPECTRAL GAP ANALYSIS — topology controls relaxation")
    print("=" * 72)

    topologies = {
        "Ring (20)": nx.cycle_graph(20),
        "Watts-Strogatz (20, k=4, p=0.3)": nx.watts_strogatz_graph(
            20, 4, 0.3, seed=SEED
        ),
        "Barabasi-Albert (20, m=2)": nx.barabasi_albert_graph(20, 2, seed=SEED),
        "Complete (10)": nx.complete_graph(10),
        "Star (20)": nx.star_graph(19),
    }

    print(
        f"\n  {'Topology':40s} {'λ₁':>8s} {'τ_relax':>10s} {'t_mix':>10s} {'Ratio':>8s}"
    )
    print(f"  {'─' * 40} {'─' * 8} {'─' * 10} {'─' * 10} {'─' * 8}")

    for label, G in topologies.items():
        # Inject defaults for TNFR attributes
        inject_defaults(G)
        rng = np.random.default_rng(SEED)
        for node in G.nodes():
            G.nodes[node]["EPI"] = float(rng.uniform(0.5, 2.0))
            G.nodes[node]["nu_f"] = float(rng.uniform(0.5, 2.0))
            G.nodes[node]["phase"] = float(rng.uniform(0, 2 * np.pi))
            G.nodes[node]["delta_nfr"] = float(rng.uniform(-0.3, 0.3))

        spec = analyze_spectral_gap(G)
        tau_str = f"{spec.relaxation_time:.4f}" if spec.relaxation_time < 1e6 else "∞"
        mix_str = (
            f"{spec.mixing_time_bound:.4f}" if spec.mixing_time_bound < 1e6 else "∞"
        )
        ratio_str = f"{spec.spectral_ratio:.2f}" if spec.spectral_ratio < 1e6 else "∞"

        print(
            f"  {label:40s} {spec.spectral_gap:8.4f} {tau_str:>10s} {mix_str:>10s} {ratio_str:>8s}"
        )
    print()


# ------------------------------------------------------------------
# 4. Operator convergence — Lyapunov + spectral combined
# ------------------------------------------------------------------


def demo_operator_convergence() -> None:
    """Show effective convergence rate combining operator and spectral gap."""
    print("=" * 72)
    print("4. OPERATOR CONVERGENCE — Lyapunov rate vs spectral gap")
    print("=" * 72)

    G = _build_graph()

    stabilisers = [
        "Coherence",
        "Reception",
        "Coupling",
        "SelfOrganization",
        "Transition",
    ]

    print(
        f"\n  {'Operator':20s} {'ρ (Lyapunov)':>14s} {'λ₁ (spectral)':>14s} "
        f"{'Effective':>10s} {'Steps to ½E':>12s}"
    )
    print(f"  {'─' * 20} {'─' * 14} {'─' * 14} {'─' * 10} {'─' * 12}")

    for name in stabilisers:
        summary = analyze_operator_convergence(G, name)
        steps_str = (
            f"{summary.steps_to_half_energy:.2f}"
            if summary.steps_to_half_energy < 1e6
            else "∞"
        )
        print(
            f"  {name:20s} {summary.operator_bound.contraction_rate:14.4f} "
            f"{summary.spectral.spectral_gap:14.4f} "
            f"{summary.effective_convergence_rate:10.4f} {steps_str:>12s}"
        )
    print()


# ------------------------------------------------------------------
# 5. Empirical Lyapunov verification on a real graph
# ------------------------------------------------------------------


def demo_empirical_verification() -> None:
    """Verify operator energy bounds against actual E[G] measurements."""
    print("=" * 72)
    print("5. EMPIRICAL LYAPUNOV VERIFICATION — bounds vs reality")
    print("=" * 72)

    from tnfr.operators import apply_glyph
    from tnfr.physics.canonical import (
        compute_phase_curvature,
        compute_phase_gradient,
        compute_structural_potential,
    )

    def _energy(G: nx.Graph) -> float:
        """Compute structural energy E = ½ Σ (Φ_s² + |∇φ|² + K_φ²)."""
        phi_s = compute_structural_potential(G)
        grad = compute_phase_gradient(G)
        k_phi = compute_phase_curvature(G)
        return sum(
            0.5 * (phi_s[n] ** 2 + grad[n] ** 2 + k_phi[n] ** 2) for n in G.nodes()
        )

    glyphs = [
        ("Coherence (IL)", "IL"),
        ("Dissonance (OZ)", "OZ"),
        ("Emission (AL)", "AL"),
    ]

    for label, glyph in glyphs:
        G = _build_graph()
        n = G.number_of_nodes()

        E_before = _energy(G)

        # Apply operator to a node
        test_node = list(G.nodes())[0]
        try:
            apply_glyph(G, test_node, glyph)
        except Exception:
            print(f"  {label:25s}  (skipped — apply error)")
            continue

        E_after = _energy(G)

        vf = verify_operator_lyapunov(glyph, E_before, E_after, n_nodes=n)
        print(f"\n  {label}:")
        print(f"    E_before = {vf.energy_before:.6f}")
        print(f"    E_after  = {vf.energy_after:.6f}")
        print(f"    delta_E  = {vf.delta_e:+.6f}")
        print(f"    Bound    = {vf.theoretical_bound:+.6f}")
        print(f"    Within?  = {vf.within_bound}  (margin = {vf.margin:.6f})")
    print()


# ------------------------------------------------------------------
# 6. Life emergence detection
# ------------------------------------------------------------------


def demo_life_emergence() -> None:
    """Detect autopoietic life-like behavior in a simulated TNFR trajectory."""
    print("=" * 72)
    print("6. LIFE EMERGENCE — autopoietic coefficient and vitality")
    print("=" * 72)

    rng = np.random.default_rng(SEED)
    T = 100
    dt = 0.1
    times = [i * dt for i in range(T)]

    # Simulate ‖EPI‖ trajectory with logistic-like growth
    gamma = 0.5  # autopoietic strength
    epi_max = 3.0  # carrying capacity
    epsilon = 0.3  # self-feedback strength

    epi = np.zeros(T)
    epi[0] = 0.1

    # External ΔNFR: decaying noise (environment becomes quieter)
    dnfr_ext = 0.5 * np.exp(-np.linspace(0, 3, T)) * (1 + 0.2 * rng.standard_normal(T))
    d_dnfr_ext_dt = np.gradient(dnfr_ext, dt)

    for i in range(T - 1):
        G_epi = gamma * epi[i] * (1 - epi[i] / epi_max)
        epi[i + 1] = epi[i] + dt * (G_epi + dnfr_ext[i])
        epi[i + 1] = max(0, epi[i + 1])

    dEPI_dt = np.gradient(epi, dt)

    # Detect life emergence
    telem = detect_life_emergence(
        times=times,
        epi_series=epi,
        dEPI_dt=dEPI_dt,
        dnfr_external=dnfr_ext,
        d_dnfr_external_dt=d_dnfr_ext_dt,
        epsilon=epsilon,
        gamma=gamma,
        epi_max=epi_max,
    )

    print(f"\n  Simulation: T={T} steps, dt={dt}")
    print(f"  Parameters: gamma={gamma}, epi_max={epi_max}, epsilon={epsilon}")

    if telem.life_threshold_time is not None:
        print(f"  Life emergence at t = {telem.life_threshold_time:.3f}  (A > 1)")
    else:
        print(f"  No life emergence detected (A never exceeded 1)")

    # Show milestones
    milestones = [0, 10, 25, 50, 75, T - 1]
    print(
        f"\n  {'Step':>6s}  {'t':>6s}  {'||EPI||':>8s}  {'A(t)':>8s}  {'Vi(t)':>8s}  {'M(t)':>8s}"
    )
    print(f"  {'─' * 6}  {'─' * 6}  {'─' * 8}  {'─' * 8}  {'─' * 8}  {'─' * 8}")
    for m in milestones:
        print(
            f"  {m:6d}  {times[m]:6.2f}  {epi[m]:8.4f}  "
            f"{float(telem.autopoietic_coefficient[m]):8.4f}  "
            f"{float(telem.vitality_index[m]):8.4f}  "
            f"{float(telem.stability_margin[m]):8.4f}"
        )

    # Stability margin interpretation
    M_final = float(telem.stability_margin[-1])
    if M_final > 0:
        interpretation = "above carrying capacity midpoint (potential saturation)"
    elif M_final > -0.25:
        interpretation = "growth regime (below midpoint)"
    else:
        interpretation = "early development (far from saturation)"
    print(f"\n  Final stability margin M = {M_final:.4f}: {interpretation}")
    print()


# ------------------------------------------------------------------
# Main
# ------------------------------------------------------------------


def main() -> None:
    print()
    print("TNFR LYAPUNOV STABILITY & STRUCTURAL LIFECYCLE")
    print("Grammar U2 guarantees net-contractive energy evolution.")
    print("E[G] = 1/2 * Sum_i [Phi_s^2 + |grad_phi|^2 + K_phi^2 + ...]")
    print()

    demo_operator_bounds()
    demo_sequence_proof()
    demo_spectral_gap()
    demo_operator_convergence()
    demo_empirical_verification()
    demo_life_emergence()

    print("=" * 72)
    print("CONCLUSION: Grammar U2 ensures Lyapunov stability.")
    print("Every destabiliser is compensated by a stabiliser,")
    print("guaranteeing the product of energy multipliers <= 1.")
    print("See: theory/STRUCTURAL_STABILITY_AND_DYNAMICS.md")
    print("=" * 72)


if __name__ == "__main__":
    main()