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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
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tetrad_evaluator.py
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FILE: src/tnfr/riemann/prime_ladder_hamiltonian.py

prime_ladder_hamiltonian.py

Source Code

python
r"""TNFR prime-ladder Hamiltonian (P14 program — Gap G1 closure).

Goal
----
Instantiate the canonical TNFR internal Hamiltonian

.. math::

    \hat{H}_{\mathrm{int}} = \hat{H}_{\mathrm{coh}} + \hat{H}_{\mathrm{freq}}
                            + \hat{H}_{\mathrm{coupling}}

(see :class:`tnfr.operators.hamiltonian.InternalHamiltonian`) on the
**prime-ladder graph** introduced by the P12 program
(:mod:`tnfr.riemann.von_mangoldt`).  This provides an explicit,
self-adjoint, finite-dimensional operator whose:

1. **Spectrum** (in the decoupled limit :math:`J_0 = 0`,
   :math:`C_0 = 0`) reproduces exactly the prime-ladder spectrum
   :math:`\{k\log p\}_{p\in\mathcal{P},\,k=1,\dots,K}`.

2. **Weighted spectral trace**
   :math:`\mathrm{Tr}(\hat W e^{-s\hat H_{\mathrm{freq}}})`, with the
   diagonal weight operator
   :math:`\hat W = \sum_{p,k}\log(p)\,|p,k\rangle\langle p,k|`,
   reproduces exactly the TNFR weighted Dirichlet trace
   :math:`Z_{\mathrm{vM}}(s)` of P12, which in turn converges to
   :math:`-\zeta'(s)/\zeta(s)` for :math:`\mathrm{Re}(s) > 1`.

TNFR interpretation
-------------------
Each prime :math:`p` contributes a **REMESH echo ladder** — a chain of
nodes :math:`(p,1), (p,2), \dots, (p,K)` linked by ladder edges
(operator #13, recursivity).  The structural frequency assigned to
each node is

.. math::

    \nu_{f,(p,k)} = k \log p,

which equals its diagonal entry in
:math:`\hat H_{\mathrm{freq}}` (per the canonical construction in
:mod:`tnfr.operators.hamiltonian`).  No inter-prime coupling is
introduced: distinct prime ladders are structurally orthogonal, which
encodes the **multiplicativity of the Euler product** at the
operator level (different primes correspond to independent invariant
subspaces of :math:`\hat H`).

Closing Gap G1 (operationally)
------------------------------
The Hilbert-Pólya programme asks for a self-adjoint operator whose
spectrum encodes the prime data driving :math:`\zeta(s)`.  In this
module:

* **Self-adjointness** is automatic — :class:`InternalHamiltonian`
  verifies Hermiticity of every component at construction
  (:meth:`InternalHamiltonian._verify_hermitian`), and a diagonal
  real matrix is trivially self-adjoint.

* **Spectrum** matches the prime-ladder data by construction (proved
  here as a numerical certificate, exact to machine precision).

* **Connection to** :math:`\zeta(s)` is realised via the weighted
  trace, which equals :math:`Z_{\mathrm{vM}}(s)` of P12 and is
  analytically continued to all of :math:`\mathbb{C}` by P13
  (:mod:`tnfr.riemann.analytic_continuation`).

What this module does NOT do
----------------------------
* It does **not** prove that the non-trivial Riemann zeros are forced
  onto :math:`\mathrm{Re}(s) = 1/2` (that is gap G4 — the substance
  of RH itself).  It only exposes them as resonance poles of the
  resolvent of the analytic continuation, matching the picture of P13.

* It does **not** introduce any coupling between distinct primes.
  Doing so would break the Euler product structure
  :math:`\zeta(s) = \prod_p (1 - p^{-s})^{-1}` at the operator level
  unless the coupling is chosen with extreme care.  Non-zero coupling
  is exposed as an optional parameter for **perturbative studies
  only**, and the certificate API explicitly verifies the decoupled
  limit.

Status: EXPERIMENTAL — Research prototype for TNFR-Riemann P14 program
(gap G1 closure, May 2026).
"""

from __future__ import annotations

import math
from dataclasses import dataclass
from typing import Sequence

import networkx as nx

from ..mathematics.unified_numerical import np
from ..operators.hamiltonian import InternalHamiltonian
from .nodal_pulse import first_primes as _first_primes
from .von_mangoldt import (
    PrimeLadderSpectrum,
    build_prime_ladder_spectrum,
    tnfr_log_zeta_derivative,
)

__all__ = [
    "build_prime_ladder_graph",
    "build_prime_ladder_weight_operator",
    "PrimeLadderHamiltonian",
    "build_prime_ladder_hamiltonian",
    "weighted_spectral_trace",
    "PrimeLadderHamiltonianCertificate",
    "verify_hamiltonian_reproduces_prime_ladder",
]


# ---------------------------------------------------------------------------
# Graph construction
# ---------------------------------------------------------------------------


def build_prime_ladder_graph(
    n_primes: int,
    *,
    max_power: int = 8,
    coupling: float = 0.0,
    primes: Sequence[int] | None = None,
) -> nx.Graph:
    r"""Construct the TNFR prime-ladder graph.

    Nodes are labelled by pairs ``(p, k)`` for each prime
    :math:`p \in \mathcal{P}` and each echo index
    :math:`k = 1, \dots, K`.  Each node carries the canonical TNFR
    structural attributes:

    * ``nu_f = k * log(p)`` (structural frequency, energy in
      :math:`\hat H_{\mathrm{freq}}`),
    * ``phase = 0``, ``EPI = 1.0``, ``Si = 1.0``, ``dnfr = 0.0``
      (neutral structural state; coherence and pressure components
      do not enter the decoupled Hamiltonian).

    REMESH echo edges link consecutive nodes on the same prime ladder
    :math:`(p, k) \leftrightarrow (p, k+1)`.  No edges connect
    distinct primes — the Euler-product orthogonality is enforced at
    the graph level.

    Parameters
    ----------
    n_primes : int
        Number of primes in :math:`\mathcal{P}` (ignored if ``primes``
        is provided).
    max_power : int, default 8
        REMESH echo cap :math:`K`.  Must satisfy ``max_power >= 1``.
    coupling : float, default 0.0
        Strength of the inter-node ladder coupling
        :math:`J_0` in :math:`\hat H_{\mathrm{coupling}}`.  Default
        ``0.0`` yields a purely diagonal Hamiltonian whose spectrum
        equals the prime-ladder spectrum exactly.  Non-zero values are
        perturbative and break exact spectrum reproduction; intended
        for stability / dependence studies only.
    primes : sequence of int, optional
        Explicit prime list.  If given, ``n_primes`` is ignored.

    Returns
    -------
    networkx.Graph
        Prime-ladder graph with structural attributes and Hamiltonian
        configuration (``H_COH_STRENGTH = 0``, ``H_COUPLING_STRENGTH =
        coupling``) attached to ``graph.graph``.

    Raises
    ------
    ValueError
        If ``max_power < 1`` or ``n_primes < 1`` (when ``primes`` not
        provided).
    """
    if max_power < 1:
        raise ValueError("max_power must be >= 1")

    if primes is None:
        if n_primes < 1:
            raise ValueError("n_primes must be >= 1")
        prime_list = _first_primes(n_primes)
    else:
        prime_list = list(primes)

    G = nx.Graph()
    # Disable coherence potential (irrelevant for prime-ladder spectrum)
    # and set ladder coupling strength.
    G.graph["H_COH_STRENGTH"] = 0.0
    G.graph["H_COUPLING_STRENGTH"] = float(coupling)

    for p in prime_list:
        log_p = math.log(p)
        for k in range(1, max_power + 1):
            node = (int(p), int(k))
            G.add_node(
                node,
                nu_f=float(k * log_p),
                phase=0.0,
                EPI=1.0,
                Si=1.0,
                dnfr=0.0,
            )
        # REMESH echo edges along the ladder of this prime only
        for k in range(1, max_power):
            G.add_edge((int(p), k), (int(p), k + 1))

    return G


def build_prime_ladder_weight_operator(G: nx.Graph) -> np.ndarray:
    r"""Diagonal weight operator :math:`\hat W = \sum_{p,k}\log(p)|p,k\rangle\langle p,k|`.

    The weight operator encodes the per-node structural emission
    strength.  In the prime-ladder construction every node
    :math:`(p,k)` carries the same weight :math:`\log p` regardless
    of the echo index :math:`k` — this is the canonical TNFR reading
    of the von Mangoldt function :math:`\Lambda(p^k) = \log p`.

    The trace
    :math:`\mathrm{Tr}(\hat W e^{-s\hat H_{\mathrm{freq}}})`
    reproduces, by construction, the weighted Dirichlet trace
    :math:`Z_{\mathrm{vM}}(s)` of :mod:`tnfr.riemann.von_mangoldt`.

    Parameters
    ----------
    G : networkx.Graph
        Output of :func:`build_prime_ladder_graph`.

    Returns
    -------
    numpy.ndarray
        Diagonal real ``(N, N)`` matrix with entries
        :math:`W_{(p,k),(p,k)} = \log p`.  Node ordering follows
        ``cached_node_list(G)`` (the same ordering used by
        :class:`InternalHamiltonian`).
    """
    from ..utils.cache import cached_node_list

    nodes = cached_node_list(G)
    weights = np.zeros(len(nodes), dtype=float)
    for i, node in enumerate(nodes):
        p, _k = node
        weights[i] = math.log(p)
    return np.diag(weights)


# ---------------------------------------------------------------------------
# Hamiltonian wrapper
# ---------------------------------------------------------------------------


@dataclass(frozen=True)
class PrimeLadderHamiltonian:
    r"""Bundled prime-ladder Hamiltonian, weight operator, and spectral data.

    Attributes
    ----------
    graph : networkx.Graph
        Prime-ladder graph.
    hamiltonian : InternalHamiltonian
        Canonical TNFR internal Hamiltonian instantiated on ``graph``.
    weight_operator : numpy.ndarray
        Diagonal weight operator :math:`\hat W` (per
        :func:`build_prime_ladder_weight_operator`).
    spectrum : PrimeLadderSpectrum
        Reference prime-ladder spectrum (from P12) for verification.
    coupling : float
        Inter-node ladder coupling strength :math:`J_0` used at
        construction.
    """

    graph: nx.Graph
    hamiltonian: InternalHamiltonian
    weight_operator: np.ndarray
    spectrum: PrimeLadderSpectrum
    coupling: float


def build_prime_ladder_hamiltonian(
    n_primes: int,
    *,
    max_power: int = 8,
    coupling: float = 0.0,
    primes: Sequence[int] | None = None,
) -> PrimeLadderHamiltonian:
    r"""Instantiate the canonical TNFR Hamiltonian on the prime-ladder graph.

    This is the **operational closure** of gap G1: a self-adjoint
    finite-dimensional operator whose decoupled (``coupling = 0``)
    spectrum equals the prime-ladder spectrum and whose weighted
    spectral trace reproduces :math:`Z_{\mathrm{vM}}(s)`.

    Parameters
    ----------
    n_primes : int
        Number of primes (ignored if ``primes`` provided).
    max_power : int, default 8
        REMESH echo cap.
    coupling : float, default 0.0
        Ladder coupling strength.  ``0.0`` gives the exact diagonal
        spectrum; non-zero values produce perturbed spectra.
    primes : sequence of int, optional
        Explicit prime list.

    Returns
    -------
    PrimeLadderHamiltonian
        Bundle containing the graph, the Hamiltonian, the weight
        operator, the reference spectrum, and the coupling value.
    """
    G = build_prime_ladder_graph(
        n_primes,
        max_power=max_power,
        coupling=coupling,
        primes=primes,
    )
    H = InternalHamiltonian(G)
    W = build_prime_ladder_weight_operator(G)
    spectrum = build_prime_ladder_spectrum(
        n_primes,
        max_power=max_power,
        primes=primes,
    )
    return PrimeLadderHamiltonian(
        graph=G,
        hamiltonian=H,
        weight_operator=W,
        spectrum=spectrum,
        coupling=float(coupling),
    )


# ---------------------------------------------------------------------------
# Spectral observables
# ---------------------------------------------------------------------------


def weighted_spectral_trace(
    H_freq: np.ndarray,
    W: np.ndarray,
    s: float | complex,
) -> complex:
    r"""Weighted spectral trace :math:`\mathrm{Tr}(\hat W e^{-s \hat H_{\mathrm{freq}}})`.

    For a diagonal Hamiltonian (decoupled prime ladders), this reduces
    to :math:`\sum_n W_{nn} e^{-s E_n}`, which equals the TNFR
    weighted Dirichlet trace :math:`Z_{\mathrm{vM}}(s)` from
    :func:`tnfr.riemann.von_mangoldt.tnfr_log_zeta_derivative`.

    For a perturbed Hamiltonian (``coupling != 0``), it evaluates
    :math:`\mathrm{Tr}(\hat W e^{-s \hat H_{\mathrm{int}}})` via the
    spectral decomposition of :math:`\hat H_{\mathrm{int}}` — see
    :meth:`InternalHamiltonian.get_spectrum`.

    Parameters
    ----------
    H_freq : numpy.ndarray
        Hamiltonian (or its frequency component) — must be Hermitian.
    W : numpy.ndarray
        Diagonal weight operator (real).
    s : float or complex
        Spectral parameter.  Convergence requires :math:`\mathrm{Re}(s) > 1`
        in the infinite-prime limit; in the finite-dimensional model it
        is well-defined for all :math:`s \in \mathbb{C}`.

    Returns
    -------
    complex
        :math:`\mathrm{Tr}(\hat W e^{-s \hat H_{\mathrm{freq}}})`.
    """
    eigvals, eigvecs = np.linalg.eigh(H_freq)
    # W in the eigenbasis: W_diag_eig[n] = <phi_n| W |phi_n>
    # For diagonal H and diagonal W on the same basis, eigvecs = identity
    # and the formula collapses to sum w_n exp(-s E_n).
    s_c = complex(s)
    exp_minus_sE = np.exp(-s_c * eigvals)
    # diag entries of U^H W U in the eigenbasis
    W_eig = np.einsum("ij,jk,ki->i", eigvecs.conj().T, W, eigvecs)
    z = np.sum(W_eig * exp_minus_sE)
    return complex(z) if isinstance(s, complex) else float(z.real)


# ---------------------------------------------------------------------------
# Certificate: Hamiltonian reproduces the prime-ladder data
# ---------------------------------------------------------------------------


@dataclass(frozen=True)
class PrimeLadderHamiltonianCertificate:
    r"""Numerical certificate that the Hamiltonian reproduces the P12 spectrum.

    Attributes
    ----------
    n_primes : int
        Number of primes used.
    max_power : int
        REMESH echo cap.
    coupling : float
        Coupling strength used at construction.
    hilbert_dim : int
        :math:`N` = total Hilbert-space dimension =
        :math:`n_{\mathrm{primes}} \times K`.
    is_hermitian : bool
        Whether the constructed Hamiltonian passed the Hermiticity
        check (``InternalHamiltonian._verify_hermitian``).  Always
        ``True`` for a successfully-constructed bundle (the
        constructor raises otherwise).
    spectrum_max_abs_error : float
        :math:`\max_n |E_n^{\mathrm{Ham}} - E_n^{\mathrm{ladder}}|`
        between the sorted Hamiltonian eigenvalues and the sorted
        prime-ladder eigenvalues.  At ``coupling = 0`` this is zero
        to machine precision.
    spectrum_reproduced : bool
        ``spectrum_max_abs_error <= spectrum_tol``.
    s_values : numpy.ndarray
        Real spectral parameters at which the weighted trace was
        compared.
    trace_max_rel_error : float
        Worst-case relative error
        :math:`\max_s |Z_H(s) - Z_{\mathrm{vM}}(s)|/|Z_{\mathrm{vM}}(s)|`
        between the Hamiltonian trace and the reference
        prime-ladder trace.  At ``coupling = 0`` this is at the
        floating-point round-off level.
    trace_reproduced : bool
        ``trace_max_rel_error <= trace_tol``.
    overall_ok : bool
        Both spectrum and trace reproduction succeeded.

    Notes
    -----
    Failure of either reproduction at ``coupling = 0`` indicates a
    construction bug.  Failure at ``coupling != 0`` is **expected**
    and quantifies how strongly inter-ladder coupling deforms the
    prime-ladder spectrum.
    """

    n_primes: int
    max_power: int
    coupling: float
    hilbert_dim: int
    is_hermitian: bool
    spectrum_max_abs_error: float
    spectrum_reproduced: bool
    s_values: np.ndarray
    trace_max_rel_error: float
    trace_reproduced: bool
    overall_ok: bool


def verify_hamiltonian_reproduces_prime_ladder(
    bundle: PrimeLadderHamiltonian,
    s_values: Sequence[float] = (2.0, 3.0, 5.0, 10.0),
    *,
    spectrum_tol: float = 1e-10,
    trace_tol: float = 1e-10,
) -> PrimeLadderHamiltonianCertificate:
    r"""Verify that the Hamiltonian reproduces the prime-ladder spectrum and trace.

    Two checks are performed:

    1. **Spectrum reproduction.** Compute the sorted eigenvalues of
       ``bundle.hamiltonian.H_int`` and compare with the sorted
       ``bundle.spectrum.eigenvalues``.  At ``coupling = 0`` these
       must agree to machine precision.

    2. **Weighted trace reproduction.** Compute
       :math:`\mathrm{Tr}(\hat W e^{-s\hat H_{\mathrm{int}}})` via
       :func:`weighted_spectral_trace` and compare with
       :func:`tnfr.riemann.von_mangoldt.tnfr_log_zeta_derivative` at
       each ``s`` in ``s_values``.

    Parameters
    ----------
    bundle : PrimeLadderHamiltonian
        Output of :func:`build_prime_ladder_hamiltonian`.
    s_values : sequence of float, default (2.0, 3.0, 5.0, 10.0)
        Real spectral parameters at which to compare the weighted
        trace.  All values should satisfy :math:`s > 1` for clean
        comparison with the convergent classical regime.
    spectrum_tol : float, default 1e-10
        Maximum allowed absolute deviation between the two spectra.
    trace_tol : float, default 1e-10
        Maximum allowed relative deviation between the two traces.

    Returns
    -------
    PrimeLadderHamiltonianCertificate
        Numerical certificate documenting both checks.
    """
    H = bundle.hamiltonian
    W = bundle.weight_operator
    spectrum = bundle.spectrum

    # --- Spectrum check ---
    eigvals_ham, _ = H.get_spectrum()
    eigvals_ham_sorted = np.sort(np.real(eigvals_ham))
    eigvals_ref_sorted = np.sort(spectrum.eigenvalues)
    spectrum_abs_error = float(np.max(np.abs(eigvals_ham_sorted - eigvals_ref_sorted)))
    spectrum_ok = spectrum_abs_error <= spectrum_tol

    # --- Weighted trace check ---
    s_arr = np.asarray(list(s_values), dtype=float)
    z_ham = np.empty(s_arr.size, dtype=complex)
    z_ref = np.empty(s_arr.size, dtype=complex)
    for i, s in enumerate(s_arr):
        z_ham[i] = weighted_spectral_trace(H.H_int, W, float(s))
        z_ref[i] = complex(tnfr_log_zeta_derivative(spectrum, float(s)))
    abs_err = np.abs(z_ham - z_ref)
    rel_err = abs_err / np.maximum(np.abs(z_ref), 1e-300)
    trace_rel_error = float(np.max(rel_err))
    trace_ok = trace_rel_error <= trace_tol

    return PrimeLadderHamiltonianCertificate(
        n_primes=spectrum.n_primes,
        max_power=spectrum.max_power,
        coupling=bundle.coupling,
        hilbert_dim=H.N,
        is_hermitian=True,  # constructor would have raised otherwise
        spectrum_max_abs_error=spectrum_abs_error,
        spectrum_reproduced=spectrum_ok,
        s_values=s_arr,
        trace_max_rel_error=trace_rel_error,
        trace_reproduced=trace_ok,
        overall_ok=bool(spectrum_ok and trace_ok),
    )