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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: tests/conftest.py

conftest.py

Test utilities.

Source Code

python
"""Test utilities."""

from __future__ import annotations

import os

import networkx as nx
import pytest

np = pytest.importorskip("numpy")

from tnfr.constants import inject_defaults
from tnfr.utils import cached_import, prune_failed_imports

STRUCTURAL_ATOL = 1e-12
STRUCTURAL_RTOL = 1e-10


def pytest_addoption(parser: pytest.Parser) -> None:
    """Expose CLI flag to force a specific mathematics backend."""

    parser.addoption(
        "--math-backend",
        action="store",
        default=None,
        help="Force TNFR_MATH_BACKEND during the session (numpy, jax, torch).",
    )


def pytest_configure(config: pytest.Config) -> None:
    """Propagate backend selection from CLI or environment before tests import."""

    requested = config.getoption("math_backend")
    env_override = os.getenv("TNFR_TEST_MATH_BACKEND")
    choice = requested or env_override
    if not choice:
        return

    os.environ["TNFR_MATH_BACKEND"] = choice

    # Ensure stale caches do not override the requested backend.
    from tnfr.mathematics import backend as backend_module  # imported lazily

    backend_module._BACKEND_CACHE.clear()


@pytest.fixture(scope="session")
def structural_tolerances() -> dict[str, float]:
    """Return the canonical absolute/relative tolerances used in tests."""

    return {"atol": STRUCTURAL_ATOL, "rtol": STRUCTURAL_RTOL}


@pytest.fixture
def structural_rng() -> np.random.Generator:
    """Provide a reproducible RNG aligned with TNFR structural conventions."""

    return np.random.default_rng(seed=0)


@pytest.fixture
def graph_canon():
    """Return a new graph with default attributes attached."""

    def _factory():
        G = nx.Graph()
        inject_defaults(G)
        return G

    return _factory


@pytest.fixture(scope="module")
def reset_cached_import():
    """Provide a helper to reset cached import state for tests."""

    def _reset() -> None:
        cached_import.cache_clear()
        prune_failed_imports()

    _reset()
    yield _reset
    _reset()


@pytest.fixture(autouse=True)
def reset_global_state(request):
    """Reset all global state between tests to ensure test isolation.

    This fixture resets:
    - Callback manager state
    - Backend caches
    - Import caches
    - Global cache managers
    - Other module-level state

    Maintains TNFR canonical invariants (§3.8 - controlled determinism).
    """
    # Skip for specific tests that explicitly manage logging state
    skip_patterns = [
        "test_logging_utils_proxy_state",
        "test_configure_logging",
        "test_reset_logging_state",
    ]
    if any(pattern in request.node.name for pattern in skip_patterns):
        yield
        return

    # Reset state before test
    _reset_all_state()

    yield

    # Reset state after test
    _reset_all_state()


def _reset_all_state() -> None:
    """Helper to reset all global state."""

    # Reset logging configured flag (but don't call _reset_logging_state as it may cause issues)
    try:
        from tnfr.utils import init as init_module

        init_module._LOGGING_CONFIGURED = False
        init_module._NP_MISSING_LOGGED = False
        # Clear IMPORT_LOG to avoid test interference
        if hasattr(init_module, "IMPORT_LOG"):
            init_module.IMPORT_LOG.clear()
    except (ImportError, AttributeError):
        pass

    # Reset callback manager
    try:
        from tnfr.utils.callbacks import callback_manager

        # Reset error limit to default
        if hasattr(callback_manager, "_error_limit"):
            callback_manager._error_limit = 100
            callback_manager._error_limit_cache = 100
        # Note: Callbacks are stored in graph.graph['callbacks'], not in the manager
        # So tests creating fresh graphs will have clean callback state
    except ImportError:
        pass

    # Reset backend cache
    try:
        from tnfr.mathematics import backend as backend_module

        backend_module._BACKEND_CACHE.clear()
    except ImportError:
        pass

    # NOTE: We skip resetting import caches here because it can trigger
    # module re-imports that affect logging state, causing test isolation issues.
    # The reset_cached_import fixture provides this functionality for tests that need it.

    # Reset global cache managers
    try:
        from tnfr.utils import cache as cache_module

        # Reset global cache manager if it exists
        cache_module._GLOBAL_CACHE_MANAGER = None
        cache_module._GLOBAL_CACHE_LAYER_CONFIG.clear()
    except (ImportError, AttributeError):
        pass

    # Reset immutable cache
    try:
        from tnfr import immutable as immutable_module

        immutable_module._IMMUTABLE_CACHE.clear()
    except (ImportError, AttributeError):
        pass

    # Reset selector threshold cache
    try:
        from tnfr import selector as selector_module

        selector_module._SELECTOR_THRESHOLD_CACHE.clear()
    except (ImportError, AttributeError):
        pass

    # Reset RNG cache (seed_hash cache)
    try:
        from tnfr import rng as rng_module

        if hasattr(rng_module, "seed_hash") and hasattr(
            rng_module.seed_hash, "cache_clear"
        ):
            rng_module.seed_hash.cache_clear()
        # Reset RNG cache lock flag and cache
        rng_module._CACHE_LOCKED = False
        if hasattr(rng_module, "_seed_hash_cache"):
            rng_module._seed_hash_cache.clear()
        if hasattr(rng_module, "_RNG_CACHE_MANAGER"):
            # Clear the cache manager layers
            manager = rng_module._RNG_CACHE_MANAGER
            if hasattr(manager, "clear_all"):
                manager.clear_all()
    except (ImportError, AttributeError):
        pass

    # Reset functools lru_caches
    try:
        from tnfr.utils import cache as cache_module

        if hasattr(cache_module, "_lru_cache_wrapper") and hasattr(
            cache_module._lru_cache_wrapper, "cache_clear"
        ):
            cache_module._lru_cache_wrapper.cache_clear()
    except (ImportError, AttributeError):
        pass

    # Reset alias mapping cache
    try:
        from tnfr import alias as alias_module

        if hasattr(alias_module, "_to_canonical_epi") and hasattr(
            alias_module._to_canonical_epi, "cache_clear"
        ):
            alias_module._to_canonical_epi.cache_clear()
    except (ImportError, AttributeError):
        pass

    # Reset gamma cache
    try:
        from tnfr import gamma as gamma_module

        if hasattr(gamma_module, "_get_builtin_gamma") and hasattr(
            gamma_module._get_builtin_gamma, "cache_clear"
        ):
            gamma_module._get_builtin_gamma.cache_clear()
    except (ImportError, AttributeError):
        pass

    # Reset validation rules caches
    try:
        from tnfr.validation import rules as rules_module

        if hasattr(rules_module, "_get_glyph_name_lookup") and hasattr(
            rules_module._get_glyph_name_lookup, "cache_clear"
        ):
            rules_module._get_glyph_name_lookup.cache_clear()
        if hasattr(rules_module, "_get_glyph_function_map") and hasattr(
            rules_module._get_glyph_function_map, "cache_clear"
        ):
            rules_module._get_glyph_function_map.cache_clear()
        # NOTE: Don't clear _functional_translators and _structural_tables caches
        # as they contain static lookup tables that should persist across tests
    except (ImportError, AttributeError):
        pass

    # Reset operator grammar cache (remesh cooldown cache)
    try:
        from tnfr.operators import remesh as remesh_module

        if hasattr(remesh_module, "_get_remesh_cooldown_default") and hasattr(
            remesh_module._get_remesh_cooldown_default, "cache_clear"
        ):
            remesh_module._get_remesh_cooldown_default.cache_clear()
    except (ImportError, AttributeError):
        pass

    # Reset dynamics runtime cache
    try:
        from tnfr.dynamics import runtime as runtime_module

        # Clear any cached integrators or state
        if hasattr(runtime_module, "_INTEGRATOR_CACHE"):
            runtime_module._INTEGRATOR_CACHE.clear()
    except (ImportError, AttributeError):
        pass

    # Reset metrics module caches
    try:
        from tnfr import metrics as metrics_module

        # Clear any metrics computation caches
        if hasattr(metrics_module, "compute_sense_index") and hasattr(
            metrics_module.compute_sense_index, "cache_clear"
        ):
            metrics_module.compute_sense_index.cache_clear()
        if hasattr(metrics_module, "compute_coherence") and hasattr(
            metrics_module.compute_coherence, "cache_clear"
        ):
            metrics_module.compute_coherence.cache_clear()
    except (ImportError, AttributeError):
        pass

    # Reset observers state
    try:
        from tnfr import observers as observers_module

        # Observers register themselves on graphs, so we can't easily clear them globally
        # Tests should create fresh graphs for proper isolation
    except (ImportError, AttributeError):
        pass

    # Reset parallel execution state
    try:
        from tnfr.dynamics import parallel as parallel_module

        # Clear any executor caches or state
        if hasattr(parallel_module, "_EXECUTOR_CACHE"):
            parallel_module._EXECUTOR_CACHE.clear()
    except (ImportError, AttributeError):
        pass

    # Reset glyph selector caches
    try:
        from tnfr import selector as selector_module

        if hasattr(selector_module, "select_glyph") and hasattr(
            selector_module.select_glyph, "cache_clear"
        ):
            selector_module.select_glyph.cache_clear()
    except (ImportError, AttributeError):
        pass

    # Reset configuration state
    try:
        from tnfr import secure_config as config_module

        # Reset any loaded configurations
        if hasattr(config_module, "_LOADED_CONFIGS"):
            config_module._LOADED_CONFIGS.clear()
    except (ImportError, AttributeError):
        pass

    # Reset validation service state
    try:
        from tnfr.validation import validator as validator_module

        # Clear any validator caches
        if hasattr(validator_module, "_VALIDATOR_CACHE"):
            validator_module._VALIDATOR_CACHE.clear()
    except (ImportError, AttributeError):
        pass


@pytest.fixture
def boundary_test_cases() -> dict[str, list[float]]:
    """Provide standard test cases for boundary testing.

    Returns standard EPI values near boundaries and in safe ranges
    for testing operator behavior at extremes.

    Returns
    -------
    dict[str, list[float]]
        Dictionary with 'upper_boundary', 'lower_boundary', and 'safe_values' keys
    """
    return {
        "upper_boundary": [0.95, 0.99, 0.999, 1.0 - 1e-10],
        "lower_boundary": [-0.95, -0.99, -0.999, -1.0 + 1e-10],
        "safe_values": [0.0, 0.5, -0.5, 0.8, -0.8],
    }


def assert_epi_in_bounds(
    epi_value: float, tolerance: float = 1e-9, abs_tol: float = 1e-12
) -> None:
    """Assert helper for verifying EPI within structural bounds with tolerance.

    This helper uses math.isclose to handle floating-point precision issues
    that may occur near boundaries.

    Parameters
    ----------
    epi_value : float
        The EPI value to check
    tolerance : float, default 1e-9
        Relative tolerance for boundary comparisons
    abs_tol : float, default 1e-12
        Absolute tolerance for boundary comparisons

    Raises
    ------
    AssertionError
        If EPI value is outside [-1.0, 1.0] beyond tolerance
    """
    import math

    # Check primary bounds
    if -1.0 <= epi_value <= 1.0:
        return

    # Check with tolerance for floating point precision
    if epi_value > 1.0:
        assert math.isclose(
            epi_value, 1.0, rel_tol=tolerance, abs_tol=abs_tol
        ), f"EPI {epi_value} exceeds upper boundary 1.0 beyond tolerance"
    elif epi_value < -1.0:
        assert math.isclose(
            epi_value, -1.0, rel_tol=tolerance, abs_tol=abs_tol
        ), f"EPI {epi_value} falls below lower boundary -1.0 beyond tolerance"