TNFR Logo
TheoryLearnSoftwareResearch

On this page

TNFR

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

About
  • Project history
  • Editorial policy
  • Contact
Resources
  • GitHub
  • PyPI
  • DOI · Zenodo
Legal
  • MIT License
  • Citation
© 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
.pre-commit-config.yaml.semgrep.yaml.zenodo.jsonARCHITECTURE.mdbandit.yamlCHANGELOG.mdCITATION.cffCONTRIBUTING.mdEMERGENT_CANON_AUDIT.mdEMERGENT_DERIVATION_PLAN.mdLICENSE.mdMakefileMANIFEST.inpyproject.tomlpyrightconfig.jsonPYTORCH_CUDA_INTEGRATION.mdREADME.mdSECURITY.mdTESTING.mdTNFR_Website_Content_Brief.md
FILE: tests/test_structural_interface_api.py

test_structural_interface_api.py

Tests for the TNFR Structural Interface orchestration API.

Covers graph construction, phase encoding, TNFR scoring, classical baselines, evaluation metrics, report export, and — crucially — that every generated operator prescription is grammar-valid under both the whole-sequence and the incremental validators (Milestone 1 acceptance criterion).

Source Code

python
"""Tests for the TNFR Structural Interface orchestration API.

Covers graph construction, phase encoding, TNFR scoring, classical baselines,
evaluation metrics, report export, and — crucially — that every generated
operator prescription is grammar-valid under both the whole-sequence and the
incremental validators (Milestone 1 acceptance criterion).
"""

from __future__ import annotations

import json
import math

import networkx as nx
import pytest

from tnfr.operators.grammar_dynamics import validate_sequence_incremental
from tnfr.operators.grammar_patterns import validate_sequence
from tnfr.operators.grammar_types import glyph_function_name
from tnfr.validation.structural_interface import (
    StructuralInterfaceProblem,
    StructuralInterfaceScore,
    baseline_score_maps,
    build_knn_graph,
    encode_phase_from_binary_state,
    evaluate_interface_scores,
    export_structural_interface_report,
    interface_score_maps,
    local_state_disagreement,
    render_structural_interface_html,
    render_structural_interface_markdown,
    score_structural_interfaces,
)

# ---------------------------------------------------------------------------
# Fixtures / helpers
# ---------------------------------------------------------------------------


def _two_cluster_records() -> list[dict[str, object]]:
    """Two well-separated 2D clusters with binary state labels."""
    records: list[dict[str, object]] = []
    for i in range(6):
        records.append({"f1": 0.0 + 0.05 * i, "f2": 0.0, "state": "low"})
    for i in range(6):
        records.append({"f1": 5.0 + 0.05 * i, "f2": 5.0, "state": "high"})
    return records


def _assert_prescription_grammar_valid(G, node, sequence) -> None:
    """Assert a glyph-code sequence passes both grammar validators.

    Prescriptions target an already-active graph state, so the whole-sequence
    validator is given ``initial_epi_nonzero=True``.  The incremental validator
    reads live node state (EPI defaults to initialized, history empty).
    """
    function_names = [glyph_function_name(code) for code in sequence]
    whole = validate_sequence(function_names, context={"initial_epi_nonzero": True})
    assert whole.passed, (sequence, getattr(whole, "message", ""))

    steps = validate_sequence_incremental(G, node, list(sequence))
    assert all(step.allowed for step in steps), [
        (step.candidate, [v.message for v in step.violations]) for step in steps
    ]


# ---------------------------------------------------------------------------
# Graph construction & encoding
# ---------------------------------------------------------------------------


def test_build_knn_graph_basic() -> None:
    records = _two_cluster_records()
    G = build_knn_graph(
        records,
        ["f1", "f2"],
        k=3,
        node_attributes=["state"],
    )
    assert G.number_of_nodes() == len(records)
    assert G.number_of_edges() > 0
    # Every edge carries a non-negative feature distance.
    for _, _, data in G.edges(data=True):
        assert "distance" in data
        assert data["distance"] >= 0.0
    # State attribute copied onto nodes.
    assert G.nodes[0]["state"] == "low"
    assert G.nodes[len(records) - 1]["state"] == "high"


def test_build_knn_graph_empty() -> None:
    G = build_knn_graph([], ["f1"], k=3)
    assert G.number_of_nodes() == 0
    assert G.number_of_edges() == 0


def test_build_knn_graph_rejects_invalid_k() -> None:
    with pytest.raises(ValueError):
        build_knn_graph(_two_cluster_records(), ["f1", "f2"], k=0)


def test_encode_phase_from_binary_state() -> None:
    G = build_knn_graph(
        _two_cluster_records(), ["f1", "f2"], k=3, node_attributes=["state"]
    )
    encode_phase_from_binary_state(G, "state", positive_value="high")
    for node in G.nodes():
        phase = G.nodes[node]["phase"]
        if G.nodes[node]["state"] == "high":
            assert phase == pytest.approx(0.0)
        else:
            assert phase == pytest.approx(math.pi)
        # theta mirror is set for TNFR phase aliasing.
        assert G.nodes[node]["theta"] == pytest.approx(phase)


# ---------------------------------------------------------------------------
# Baselines
# ---------------------------------------------------------------------------


def test_local_state_disagreement_uniform_is_zero() -> None:
    G = nx.path_graph(5)
    for node in G.nodes():
        G.nodes[node]["state"] = "same"
    disagreement = local_state_disagreement(G, "state")
    assert set(disagreement.values()) == {0}


def test_local_state_disagreement_counts_conflicts() -> None:
    G = nx.path_graph(3)
    G.nodes[0]["state"] = "a"
    G.nodes[1]["state"] = "b"
    G.nodes[2]["state"] = "a"
    disagreement = local_state_disagreement(G, "state")
    # Middle node disagrees with both neighbours.
    assert disagreement[1] == 2
    assert disagreement[0] == 1
    assert disagreement[2] == 1


def test_baseline_score_maps_keys() -> None:
    G = build_knn_graph(
        _two_cluster_records(), ["f1", "f2"], k=3, node_attributes=["state"]
    )
    maps = baseline_score_maps(G, state_key="state")
    assert set(maps) == {
        "local_state_disagreement",
        "mean_neighbour_distance",
        "topology_degree",
        "constant_baseline",
    }
    for score_map in maps.values():
        assert set(score_map) == set(G.nodes())
        assert all(math.isfinite(v) for v in score_map.values())


# ---------------------------------------------------------------------------
# TNFR scoring
# ---------------------------------------------------------------------------


def test_score_structural_interfaces_finite_and_complete() -> None:
    G = build_knn_graph(
        _two_cluster_records(), ["f1", "f2"], k=3, node_attributes=["state"]
    )
    encode_phase_from_binary_state(G, "state", positive_value="high")
    scores = score_structural_interfaces(G)
    assert len(scores) == G.number_of_nodes()
    for score in scores:
        assert isinstance(score, StructuralInterfaceScore)
        assert math.isfinite(score.tnfr_stress)
        assert math.isfinite(score.phase_gradient)
        assert math.isfinite(score.abs_curvature)
        assert math.isfinite(score.structural_potential)
        assert score.incident_violation_count >= 0


def test_score_structural_interfaces_problem_object() -> None:
    G = build_knn_graph(
        _two_cluster_records(), ["f1", "f2"], k=3, node_attributes=["state"]
    )
    encode_phase_from_binary_state(G, "state", positive_value="high")
    problem = StructuralInterfaceProblem(graph=G, state_key="state", domain="unit-test")
    scores = score_structural_interfaces(problem)
    assert len(scores) == G.number_of_nodes()


def test_uniform_state_has_low_stress() -> None:
    """Well-separated clusters with internally uniform state have no interfaces."""
    G = build_knn_graph(
        _two_cluster_records(), ["f1", "f2"], k=2, node_attributes=["state"]
    )
    encode_phase_from_binary_state(G, "state", positive_value="high")
    scores = score_structural_interfaces(G)
    # With separated clusters, intra-cluster edges dominate -> no gate violations.
    assert all(score.incident_violation_count == 0 for score in scores)


# ---------------------------------------------------------------------------
# Grammar validity of prescriptions (Milestone 1 acceptance)
# ---------------------------------------------------------------------------


def test_all_prescriptions_grammar_valid_separated() -> None:
    G = build_knn_graph(
        _two_cluster_records(), ["f1", "f2"], k=3, node_attributes=["state"]
    )
    encode_phase_from_binary_state(G, "state", positive_value="high")
    scores = score_structural_interfaces(G)
    for score in scores:
        _assert_prescription_grammar_valid(G, score.node, score.prescription)


def test_all_prescriptions_grammar_valid_mixed() -> None:
    """Force phase conflicts to exercise the failed/hotspot prescription paths."""
    G = nx.Graph()
    # Star with a phase-conflicting hub forces gate violations.
    G.add_node(0, state="a", phase=0.0, theta=0.0)
    for leaf in range(1, 6):
        G.add_node(leaf, state="b", phase=math.pi, theta=math.pi)
        G.add_edge(0, leaf, distance=1.0)
    scores = score_structural_interfaces(G)
    assert any(score.incident_violation_count > 0 for score in scores)
    for score in scores:
        _assert_prescription_grammar_valid(G, score.node, score.prescription)


# ---------------------------------------------------------------------------
# Evaluation
# ---------------------------------------------------------------------------


def test_evaluate_interface_scores_metrics() -> None:
    G = build_knn_graph(
        _two_cluster_records(), ["f1", "f2"], k=3, node_attributes=["state"]
    )
    encode_phase_from_binary_state(G, "state", positive_value="high")
    scores = score_structural_interfaces(G)
    tnfr_map = interface_score_maps(scores)
    baselines = baseline_score_maps(G, state_key="state")

    # NOTE: this target equals local disagreement, so it is a localization
    # sanity check (circular), not an external superiority claim.
    disagreement = local_state_disagreement(G, "state")
    labels = {node: disagreement[node] > 0 for node in G.nodes()}

    evaluation = evaluate_interface_scores(
        labels, {"tnfr_stress": tnfr_map, **baselines}
    )
    assert evaluation["total_nodes"] == G.number_of_nodes()
    names = {row["score"] for row in evaluation["score_comparison"]}
    assert "tnfr_stress" in names
    for row in evaluation["score_comparison"]:
        assert 0.0 <= row["auc"] <= 1.0
        assert 0.0 <= row["precision_at_review_count"] <= 1.0


def test_evaluate_handles_degenerate_labels() -> None:
    G = nx.path_graph(4)
    scores = {node: float(node) for node in G.nodes()}
    labels = {node: False for node in G.nodes()}  # no positives
    evaluation = evaluate_interface_scores(labels, {"score": scores})
    assert evaluation["review_node_count"] == 0
    row = evaluation["score_comparison"][0]
    assert row["auc"] == pytest.approx(0.5)
    assert row["precision_at_review_count"] == pytest.approx(0.0)


# ---------------------------------------------------------------------------
# Reporting / export
# ---------------------------------------------------------------------------


def _build_result_payload(G) -> dict[str, object]:
    scores = score_structural_interfaces(G)
    tnfr_map = interface_score_maps(scores)
    baselines = baseline_score_maps(G, state_key="state")
    disagreement = local_state_disagreement(G, "state")
    labels = {node: disagreement[node] > 0 for node in G.nodes()}
    evaluation = evaluate_interface_scores(
        labels, {"tnfr_stress": tnfr_map, **baselines}
    )
    top = sorted(scores, key=lambda s: s.tnfr_stress, reverse=True)[:5]
    return {
        "dataset": {
            "name": "unit-test",
            "sector": "generic",
            "samples": G.number_of_nodes(),
        },
        "graph": {
            "construction": "k-NN graph",
            "nodes": G.number_of_nodes(),
            "edges": G.number_of_edges(),
        },
        "task": {
            "target_definition": "local_state_disagreement > 0",
            "is_circular_target": True,
        },
        "evaluation": evaluation,
        "hotspots": [s.as_dict() for s in top],
        "honest_interpretation": "Circular target; localization sanity check only.",
    }


def test_render_markdown_and_html() -> None:
    G = build_knn_graph(
        _two_cluster_records(), ["f1", "f2"], k=3, node_attributes=["state"]
    )
    encode_phase_from_binary_state(G, "state", positive_value="high")
    result = _build_result_payload(G)
    markdown = render_structural_interface_markdown(result)
    assert "# TNFR Structural Interface Audit" in markdown
    assert "Score comparison" in markdown
    html = render_structural_interface_html(markdown)
    assert "<html" in html
    assert "<table>" in html


def test_export_structural_interface_report(tmp_path) -> None:
    G = build_knn_graph(
        _two_cluster_records(), ["f1", "f2"], k=3, node_attributes=["state"]
    )
    encode_phase_from_binary_state(G, "state", positive_value="high")
    result = _build_result_payload(G)
    paths = export_structural_interface_report(result, tmp_path, stem="demo")
    assert paths["json"].exists()
    assert paths["markdown"].exists()
    assert paths["html"].exists()
    # JSON round-trips.
    loaded = json.loads(paths["json"].read_text(encoding="utf-8"))
    assert loaded["graph"]["nodes"] == G.number_of_nodes()