codontrace 0.3.0b2__tar.gz → 0.3.0b4.dev0__tar.gz
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- codontrace-0.3.0b4.dev0/.github/workflows/ci.yml +136 -0
- codontrace-0.3.0b4.dev0/CHANGELOG.md +606 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/CITATION.cff +1 -1
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/CONTRIBUTING.md +10 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/MANIFEST.in +6 -0
- codontrace-0.3.0b4.dev0/PKG-INFO +401 -0
- codontrace-0.3.0b4.dev0/README.md +349 -0
- codontrace-0.3.0b4.dev0/RELEASE_EVIDENCE.md +64 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/docs/ADF_MACRO_LIFECYCLE.md +1 -1
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/docs/API_STABILITY_POLICY.md +2 -2
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/docs/BENCHMARK_SCENARIO_SUITE.md +1 -1
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/docs/CAPSULE_TRANSFER_VALIDATION.md +1 -1
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/docs/CAUSAL_INTERVENTION_PROTOCOL.md +1 -1
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/docs/CAUSAL_VALIDATION_PROTOCOL.md +1 -1
- codontrace-0.3.0b4.dev0/docs/CLAIMGATE_STANDALONE.md +59 -0
- codontrace-0.3.0b4.dev0/docs/CLAIM_CONTROL.md +3 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/docs/CLAIM_GATE_POLICY.md +1 -1
- codontrace-0.3.0b4.dev0/docs/CLAIM_LADDER.md +30 -0
- codontrace-0.3.0b4.dev0/docs/CLAIM_LADDER_MAP.md +41 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/docs/CONTRIBUTION_LEDGER.md +1 -1
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/docs/DISCOVERY_EXPERIMENT_PROTOCOL.md +1 -1
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/docs/DISCOVERY_GATE_PROTOCOL.md +1 -1
- codontrace-0.3.0b4.dev0/docs/ENGINE_REPLAY_CONTRACT.md +47 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/docs/EVENT_GRAPH_AND_CAUSAL_PROTOCOL.md +1 -1
- codontrace-0.3.0b4.dev0/docs/FEATURE_WIRING_MATRIX.md +31 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/docs/GENESIS_COMPATIBILITY_MATRIX.md +1 -1
- codontrace-0.3.0b4.dev0/docs/HARD_EXPERIMENT_01.md +519 -0
- codontrace-0.3.0b4.dev0/docs/HARD_EXPERIMENT_01_ODD.md +333 -0
- codontrace-0.3.0b4.dev0/docs/HARD_EXPERIMENT_01_PREREG.md +294 -0
- codontrace-0.3.0b4.dev0/docs/HARD_EXPERIMENT_01_PREREG_AMENDMENT_01.md +152 -0
- codontrace-0.3.0b4.dev0/docs/HARD_EXPERIMENT_01_PREREG_AMENDMENT_02.md +192 -0
- codontrace-0.3.0b4.dev0/docs/HARD_EXPERIMENT_01_PREREG_AMENDMENT_03.md +148 -0
- codontrace-0.3.0b4.dev0/docs/HARD_EXPERIMENT_01_PREREG_AMENDMENT_04.md +144 -0
- codontrace-0.3.0b4.dev0/docs/HARD_EXPERIMENT_01_PREREG_AMENDMENT_05.md +136 -0
- codontrace-0.3.0b4.dev0/docs/HARD_EXPERIMENT_02_PREREG.md +42 -0
- codontrace-0.3.0b4.dev0/docs/ILW5_CAMPAIGN.md +59 -0
- codontrace-0.3.0b4.dev0/docs/ILW5_PARTIAL_RESULTS.md +103 -0
- codontrace-0.3.0b4.dev0/docs/ILW6_EXPLORATORY.md +54 -0
- codontrace-0.3.0b4.dev0/docs/ILW_PILOT_S2_RESULTS.md +82 -0
- codontrace-0.3.0b4.dev0/docs/ILW_PREREG_V1.md +226 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/docs/INNOVATION_PROTECTION.md +1 -1
- codontrace-0.3.0b4.dev0/docs/LLM_REVIEW_AND_RULE_API.md +15 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/docs/ODD_REPORTING.md +2 -2
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/docs/OEE_LONG_HORIZON_PROTOCOL.md +5 -2
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/docs/PERFORMANCE_PHASE1.md +1 -1
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/docs/PHASE2_CLAIM_GATE_POLICY.md +1 -1
- codontrace-0.3.0b4.dev0/docs/PHASE2_SCIENTIFIC_EVIDENCE_LADDER.md +9 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/docs/PHASE_D_LITERATURE.md +16 -5
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/docs/PHASE_E_LITERATURE.md +22 -9
- codontrace-0.3.0b4.dev0/docs/PHASE_G_MATERIALS_LITERATURE.md +59 -0
- codontrace-0.3.0b4.dev0/docs/PHASE_H_CI_AI_PATH.md +163 -0
- codontrace-0.3.0b4.dev0/docs/PHASE_INDEX.md +36 -0
- codontrace-0.3.0b4.dev0/docs/PHASE_I_CI_EVIDENCE.md +156 -0
- codontrace-0.3.0b4.dev0/docs/PHASE_J_REPLAY_CI.md +154 -0
- codontrace-0.3.0b4.dev0/docs/PHASE_K_CI_DEPTH.md +183 -0
- codontrace-0.3.0b4.dev0/docs/PHASE_L_AVIDA_FIDELITY.md +212 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/docs/QD_DESCRIPTOR_GUIDE.md +1 -1
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/docs/QD_SEARCH_LOOP.md +1 -1
- codontrace-0.3.0b4.dev0/docs/SCIENTIFIC_AUTHORITIES_2026.md +315 -0
- codontrace-0.3.0b4.dev0/docs/SCIENTIFIC_CLAIM_LADDER.md +18 -0
- codontrace-0.3.0b4.dev0/docs/SCIENTIFIC_EXPERIMENT_PROTOCOL.md +5 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/docs/SCIENTIFIC_LIMITS.md +1 -1
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/docs/SCIENTIFIC_METHOD_NOTES.md +7 -7
- codontrace-0.3.0b4.dev0/docs/SOCIAL_COLLECTIVE_INTELLIGENCE_PROTOCOL.md +39 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/docs/STUDIO_BOUNDARY.md +3 -3
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/docs/STUDIO_PHASE1_EXECUTION_SPEC.md +4 -4
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/docs/TRANSLATION_PROFILE_SEMANTIC_PROXY.md +1 -1
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/docs/VARIABLE_GENOME_AND_STRUCTURAL_MUTATION.md +1 -1
- codontrace-0.3.0b4.dev0/docs/WHY_NOT_INTELLIGENCE_YET.md +460 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/docs/api.md +3 -3
- codontrace-0.3.0b4.dev0/docs/colab/README.md +6 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/docs/concepts.md +5 -4
- codontrace-0.3.0b4.dev0/docs/design/ASME_VV40_CONTEXT_OF_USE.md +20 -0
- codontrace-0.3.0b4.dev0/docs/design/AVIDA_DAT.md +32 -0
- codontrace-0.3.0b4.dev0/docs/design/HARD_EXPERIMENT_01_V2_ASSAY_INVALID.md +24 -0
- codontrace-0.3.0b4.dev0/docs/design/MABE2_DATAFILE.md +21 -0
- codontrace-0.3.0b4.dev0/docs/design/MODES_CHANNON_MEASUREMENT_NEIGHBORS.md +27 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/docs/design_notes/a25_final_scientific_library_hardening.md +1 -1
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/docs/design_notes/a25_metadata_evidence_validation_context.md +1 -1
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/docs/design_notes/a25_strengthened_final_acceptance_patch.md +2 -2
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/docs/design_notes/a35_developer_evidence_chain_hardening.md +1 -1
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/docs/design_notes/phase2_strong_scientific_layer.md +1 -1
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/docs/design_notes/strong_library_phase1.md +1 -1
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/docs/extensibility.md +4 -4
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/docs/genesis_causal_capsule_runtime.md +2 -2
- codontrace-0.3.0b4.dev0/docs/hard_experiment_01/AMD03_CODE_DEVIATIONS.md +35 -0
- codontrace-0.3.0b4.dev0/docs/hard_experiment_01/WAVE_1D_DOUBLE_PRIME_HONESTY.md +167 -0
- codontrace-0.3.0b4.dev0/docs/hard_experiment_01/WAVE_1D_PILOT_DIAGNOSIS.md +155 -0
- codontrace-0.3.0b4.dev0/docs/hard_experiment_01/WAVE_1D_PILOT_REPORT.md +53 -0
- codontrace-0.3.0b4.dev0/docs/hard_experiment_01/WAVE_1E_PILOT_REPORT.md +105 -0
- codontrace-0.3.0b4.dev0/docs/hard_experiment_01/WAVE_1E_SCIENCE_BRIEF.md +317 -0
- codontrace-0.3.0b4.dev0/docs/hard_experiment_01/morris_e6_design.md +141 -0
- codontrace-0.3.0b4.dev0/docs/hard_experiment_01/morris_e6_smoke.json +124 -0
- codontrace-0.3.0b4.dev0/docs/hard_experiment_01/pilot_v5.json +2239 -0
- codontrace-0.3.0b4.dev0/docs/hard_experiment_01/pilot_v6.json +3393 -0
- codontrace-0.3.0b4.dev0/docs/hard_experiment_01/results_v1.json +4030 -0
- codontrace-0.3.0b4.dev0/docs/hard_experiment_01/results_v2.json +4044 -0
- codontrace-0.3.0b4.dev0/docs/hard_experiment_01/results_v3.json +5467 -0
- codontrace-0.3.0b4.dev0/docs/hard_experiment_01/results_v5.json +5538 -0
- codontrace-0.3.0b4.dev0/docs/hard_experiment_01/results_v6.json +10191 -0
- codontrace-0.3.0b4.dev0/docs/hard_experiment_02/HE02_SCIENCE_BRIEF.md +14 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/docs/initialization.md +1 -1
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/docs/non_goals.md +4 -4
- codontrace-0.3.0b4.dev0/docs/rag/README.md +65 -0
- codontrace-0.3.0b4.dev0/docs/rag/corpus/avida_cfg_deme_group.md +36 -0
- codontrace-0.3.0b4.dev0/docs/rag/corpus/avida_cfg_organism_messaging.md +36 -0
- codontrace-0.3.0b4.dev0/docs/rag/corpus/cao_yang_2026_vocabulary_verifier_gaps.md +35 -0
- codontrace-0.3.0b4.dev0/docs/rag/corpus/channon_2024_tokyo_type1.md +35 -0
- codontrace-0.3.0b4.dev0/docs/rag/corpus/chaturvedi_2026_role_mls.md +35 -0
- codontrace-0.3.0b4.dev0/docs/rag/corpus/conlin_2023_dol_multicellularity_avida.md +35 -0
- codontrace-0.3.0b4.dev0/docs/rag/corpus/goldsby_2012_pnas_task_switching.md +36 -0
- codontrace-0.3.0b4.dev0/docs/rag/corpus/goldsby_ofria_avida_messaging_germline.md +36 -0
- codontrace-0.3.0b4.dev0/docs/rag/corpus/gorelick_2004_normalized_mutual_entropy_dol.md +35 -0
- codontrace-0.3.0b4.dev0/docs/rag/corpus/jaxlife_2024.md +35 -0
- codontrace-0.3.0b4.dev0/docs/rag/corpus/michod_2007_pnas_export_of_fitness.md +35 -0
- codontrace-0.3.0b4.dev0/docs/rag/corpus/miikkulainen_forrest_2021_nature_mi.md +36 -0
- codontrace-0.3.0b4.dev0/docs/rag/corpus/okasha_2006_levels_of_selection.md +35 -0
- codontrace-0.3.0b4.dev0/docs/rag/corpus/price_1970_selection_and_covariance.md +35 -0
- codontrace-0.3.0b4.dev0/docs/rag/corpus/price_1972_extension_covariance_selection.md +35 -0
- codontrace-0.3.0b4.dev0/docs/rag/corpus/soros_stanley_2014_chromaria.md +36 -0
- codontrace-0.3.0b4.dev0/docs/rag/corpus/stanley_2017_open_endedness_creative_intelligence.md +35 -0
- codontrace-0.3.0b4.dev0/docs/rag/corpus/szathmary_maynard_smith_michod_transitions.md +35 -0
- codontrace-0.3.0b4.dev0/docs/scientific_freshness_matrix_integration.md +9 -0
- codontrace-0.3.0b4.dev0/examples/claimgate_audit_hard_experiment_01.py +62 -0
- codontrace-0.3.0b4.dev0/examples/collective_joss_drive_resume.py +270 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/collective_joss_evidence_benchmark.py +2 -2
- codontrace-0.3.0b4.dev0/examples/genesis_hard_experiment_01.py +52 -0
- codontrace-0.3.0b4.dev0/examples/genesis_materials_world.py +98 -0
- codontrace-0.3.0b4.dev0/examples/genesis_phase_i_ci_evidence.py +84 -0
- codontrace-0.3.0b4.dev0/examples/genesis_phase_j_replay_ci.py +70 -0
- codontrace-0.3.0b4.dev0/examples/genesis_phase_k_ci_depth.py +79 -0
- codontrace-0.3.0b4.dev0/examples/genesis_phase_l_avida_fidelity.py +78 -0
- codontrace-0.3.0b4.dev0/examples/genesis_rag_query.py +65 -0
- codontrace-0.3.0b4.dev0/examples/genesis_scientific_gaps_2026.py +92 -0
- codontrace-0.3.0b4.dev0/examples/genesis_tokyo_type1_measurement.py +63 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/pyproject.toml +5 -1
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/__init__.py +2 -2
- codontrace-0.3.0b4.dev0/src/codontrace/claimgate/__init__.py +47 -0
- codontrace-0.3.0b4.dev0/src/codontrace/claimgate/__main__.py +48 -0
- codontrace-0.3.0b4.dev0/src/codontrace/claimgate/adapters/__init__.py +19 -0
- codontrace-0.3.0b4.dev0/src/codontrace/claimgate/adapters/avida.py +163 -0
- codontrace-0.3.0b4.dev0/src/codontrace/claimgate/adapters/codontrace.py +333 -0
- codontrace-0.3.0b4.dev0/src/codontrace/claimgate/adapters/mabe2.py +134 -0
- codontrace-0.3.0b4.dev0/src/codontrace/claimgate/auditor.py +410 -0
- codontrace-0.3.0b4.dev0/src/codontrace/claimgate/ladder.py +64 -0
- codontrace-0.3.0b4.dev0/src/codontrace/claimgate/schema.py +378 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/engine.py +32 -271
- codontrace-0.3.0b4.dev0/src/codontrace/engine_digest.py +213 -0
- codontrace-0.3.0b4.dev0/src/codontrace/engine_results.py +107 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/__init__.py +451 -3
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/artifacts.py +1 -1
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/benchmark_suite.py +143 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/birth.py +93 -3
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/campaign.py +1 -1
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/capsule.py +49 -1
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/claim_gate.py +102 -9
- codontrace-0.3.0b4.dev0/src/codontrace/genesis/collective_deme.py +726 -0
- codontrace-0.3.0b4.dev0/src/codontrace/genesis/empirical_systematics.py +410 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/environment.py +7 -1
- codontrace-0.3.0b4.dev0/src/codontrace/genesis/hard_experiment_01.py +3101 -0
- codontrace-0.3.0b4.dev0/src/codontrace/genesis/hard_experiment_01_morris.py +623 -0
- codontrace-0.3.0b4.dev0/src/codontrace/genesis/ilw/INTEGRATION_DAG.json +535 -0
- codontrace-0.3.0b4.dev0/src/codontrace/genesis/ilw/__init__.py +264 -0
- codontrace-0.3.0b4.dev0/src/codontrace/genesis/ilw/adapter_honesty.py +46 -0
- codontrace-0.3.0b4.dev0/src/codontrace/genesis/ilw/campaign.py +722 -0
- codontrace-0.3.0b4.dev0/src/codontrace/genesis/ilw/chain_runtime.py +1287 -0
- codontrace-0.3.0b4.dev0/src/codontrace/genesis/ilw/conservation.py +154 -0
- codontrace-0.3.0b4.dev0/src/codontrace/genesis/ilw/dag.py +223 -0
- codontrace-0.3.0b4.dev0/src/codontrace/genesis/ilw/dual_resource_world.py +138 -0
- codontrace-0.3.0b4.dev0/src/codontrace/genesis/ilw/event_consumer.py +86 -0
- codontrace-0.3.0b4.dev0/src/codontrace/genesis/ilw/event_ledger.py +236 -0
- codontrace-0.3.0b4.dev0/src/codontrace/genesis/ilw/exploratory.py +705 -0
- codontrace-0.3.0b4.dev0/src/codontrace/genesis/ilw/integrated_smoke.py +261 -0
- codontrace-0.3.0b4.dev0/src/codontrace/genesis/ilw/knockouts.py +81 -0
- codontrace-0.3.0b4.dev0/src/codontrace/genesis/ilw/orphan.py +62 -0
- codontrace-0.3.0b4.dev0/src/codontrace/genesis/ilw/pilot.py +692 -0
- codontrace-0.3.0b4.dev0/src/codontrace/genesis/ilw/prereg.py +553 -0
- codontrace-0.3.0b4.dev0/src/codontrace/genesis/ilw/scheduler.py +81 -0
- codontrace-0.3.0b4.dev0/src/codontrace/genesis/ilw/seed_namespace.py +90 -0
- codontrace-0.3.0b4.dev0/src/codontrace/genesis/ilw/world_spec.py +197 -0
- codontrace-0.3.0b4.dev0/src/codontrace/genesis/learning_payoff.py +320 -0
- codontrace-0.3.0b4.dev0/src/codontrace/genesis/logic9.py +447 -0
- codontrace-0.3.0b4.dev0/src/codontrace/genesis/materials.py +1967 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/multi_generation.py +234 -50
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/organism.py +47 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/phase_e.py +104 -40
- codontrace-0.3.0b4.dev0/src/codontrace/genesis/phase_h.py +829 -0
- codontrace-0.3.0b4.dev0/src/codontrace/genesis/phase_i.py +1620 -0
- codontrace-0.3.0b4.dev0/src/codontrace/genesis/phase_j.py +898 -0
- codontrace-0.3.0b4.dev0/src/codontrace/genesis/phase_k.py +1764 -0
- codontrace-0.3.0b4.dev0/src/codontrace/genesis/phase_l.py +1401 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/population.py +409 -13
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/public_api_manifest.py +17 -4
- codontrace-0.3.0b4.dev0/src/codontrace/genesis/rag/__init__.py +39 -0
- codontrace-0.3.0b4.dev0/src/codontrace/genesis/rag/corpus/avida_cfg_deme_group.md +36 -0
- codontrace-0.3.0b4.dev0/src/codontrace/genesis/rag/corpus/avida_cfg_organism_messaging.md +36 -0
- codontrace-0.3.0b4.dev0/src/codontrace/genesis/rag/corpus/cao_yang_2026_vocabulary_verifier_gaps.md +35 -0
- codontrace-0.3.0b4.dev0/src/codontrace/genesis/rag/corpus/channon_2024_tokyo_type1.md +35 -0
- codontrace-0.3.0b4.dev0/src/codontrace/genesis/rag/corpus/chaturvedi_2026_role_mls.md +35 -0
- codontrace-0.3.0b4.dev0/src/codontrace/genesis/rag/corpus/conlin_2023_dol_multicellularity_avida.md +35 -0
- codontrace-0.3.0b4.dev0/src/codontrace/genesis/rag/corpus/goldsby_2012_pnas_task_switching.md +36 -0
- codontrace-0.3.0b4.dev0/src/codontrace/genesis/rag/corpus/goldsby_ofria_avida_messaging_germline.md +36 -0
- codontrace-0.3.0b4.dev0/src/codontrace/genesis/rag/corpus/gorelick_2004_normalized_mutual_entropy_dol.md +35 -0
- codontrace-0.3.0b4.dev0/src/codontrace/genesis/rag/corpus/jaxlife_2024.md +35 -0
- codontrace-0.3.0b4.dev0/src/codontrace/genesis/rag/corpus/michod_2007_pnas_export_of_fitness.md +35 -0
- codontrace-0.3.0b4.dev0/src/codontrace/genesis/rag/corpus/miikkulainen_forrest_2021_nature_mi.md +36 -0
- codontrace-0.3.0b4.dev0/src/codontrace/genesis/rag/corpus/okasha_2006_levels_of_selection.md +35 -0
- codontrace-0.3.0b4.dev0/src/codontrace/genesis/rag/corpus/price_1970_selection_and_covariance.md +35 -0
- codontrace-0.3.0b4.dev0/src/codontrace/genesis/rag/corpus/price_1972_extension_covariance_selection.md +35 -0
- codontrace-0.3.0b4.dev0/src/codontrace/genesis/rag/corpus/seed.jsonl +18 -0
- codontrace-0.3.0b4.dev0/src/codontrace/genesis/rag/corpus/soros_stanley_2014_chromaria.md +36 -0
- codontrace-0.3.0b4.dev0/src/codontrace/genesis/rag/corpus/stanley_2017_open_endedness_creative_intelligence.md +35 -0
- codontrace-0.3.0b4.dev0/src/codontrace/genesis/rag/corpus/szathmary_maynard_smith_michod_transitions.md +35 -0
- codontrace-0.3.0b4.dev0/src/codontrace/genesis/rag/retriever.py +533 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/replay_integrity.py +191 -7
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/runtime_profiles.py +206 -35
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/statistical_protocol.py +282 -8
- codontrace-0.3.0b4.dev0/src/codontrace/genesis/tokyo_type1.py +606 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/trace.py +6 -1
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/world.py +10 -0
- codontrace-0.3.0b4.dev0/src/codontrace.egg-info/PKG-INFO +401 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace.egg-info/SOURCES.txt +172 -1
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/examples/test_collective_joss_evidence_benchmark_smoke.py +1 -1
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/genesis_gates/test_artifact_manifest_claim_ready_schema.py +2 -2
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/genesis_gates/test_claim_gate_strong_claim_ladder.py +2 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/genesis_gates/test_phase3_polish_release_identity_and_manifest.py +1 -1
- codontrace-0.3.0b4.dev0/tests/genesis_gates/test_phase_h_rag_claimgate.py +24 -0
- codontrace-0.3.0b4.dev0/tests/genesis_gates/test_phase_i_claimgate.py +37 -0
- codontrace-0.3.0b4.dev0/tests/genesis_gates/test_phase_j_claimgate.py +36 -0
- codontrace-0.3.0b4.dev0/tests/genesis_gates/test_phase_k_claimgate.py +45 -0
- codontrace-0.3.0b4.dev0/tests/genesis_gates/test_phase_l_claimgate.py +46 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/release/test_core_boundary_ast_guard.py +27 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/science_gates/test_scientific_claim_gate.py +14 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/science_gates/test_strong_library_phase1_fitness_qd_rng.py +1 -1
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/science_gates/test_strong_library_phase2_event_oee_translation.py +2 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_a35_binding_release_identity_aliases.py +1 -1
- codontrace-0.3.0b4.dev0/tests/test_claimgate_adapters.py +101 -0
- codontrace-0.3.0b4.dev0/tests/test_claimgate_auditor.py +156 -0
- codontrace-0.3.0b4.dev0/tests/test_claimgate_cli.py +23 -0
- codontrace-0.3.0b4.dev0/tests/test_engine_module_boundaries.py +48 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_a18_hardening.py +2 -2
- codontrace-0.3.0b4.dev0/tests/test_genesis_eval_bugfixes.py +201 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_final_runtime_wiring.py +9 -6
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_phase1_runtime_maturity_report.py +1 -1
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_phase_a_life_loop.py +15 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_phase_b_sexual_recombination.py +5 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_phase_d_multigen_evidence.py +61 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_phase_e_substrate.py +32 -0
- codontrace-0.3.0b4.dev0/tests/test_genesis_phase_g_materials.py +344 -0
- codontrace-0.3.0b4.dev0/tests/test_genesis_phase_h_rag_ci.py +221 -0
- codontrace-0.3.0b4.dev0/tests/test_genesis_phase_i_ci_evidence.py +227 -0
- codontrace-0.3.0b4.dev0/tests/test_genesis_phase_j_replay_ci.py +238 -0
- codontrace-0.3.0b4.dev0/tests/test_genesis_phase_k_ci_depth.py +276 -0
- codontrace-0.3.0b4.dev0/tests/test_genesis_phase_l_avida_fidelity.py +339 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_pilot_strengthened_v3.py +11 -7
- codontrace-0.3.0b4.dev0/tests/test_genesis_scientific_gaps_2026.py +508 -0
- codontrace-0.3.0b4.dev0/tests/test_genesis_tokyo_type1_measurement.py +123 -0
- codontrace-0.3.0b4.dev0/tests/test_hard_experiment_01.py +1294 -0
- codontrace-0.3.0b4.dev0/tests/test_hard_experiment_01_e6.py +257 -0
- codontrace-0.3.0b4.dev0/tests/test_ilw0_integration_dag.py +130 -0
- codontrace-0.3.0b4.dev0/tests/test_ilw1_world_runtime.py +196 -0
- codontrace-0.3.0b4.dev0/tests/test_ilw2_causal_chain.py +166 -0
- codontrace-0.3.0b4.dev0/tests/test_ilw3_integrated_smoke.py +131 -0
- codontrace-0.3.0b4.dev0/tests/test_ilw4_prereg.py +155 -0
- codontrace-0.3.0b4.dev0/tests/test_ilw5_campaign.py +189 -0
- codontrace-0.3.0b4.dev0/tests/test_ilw6_exploratory.py +122 -0
- codontrace-0.3.0b4.dev0/tests/test_ilw_pilot_gates.py +110 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_import.py +1 -1
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_semantics_docs_polish_a9.py +1 -1
- codontrace-0.3.0b4.dev0/tests/test_statistical_protocol_effect_size.py +57 -0
- codontrace-0.3.0b4.dev0/tests/test_statistical_protocol_inferential.py +119 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tools/check_core_boundary.py +64 -1
- codontrace-0.3.0b2/.github/workflows/ci.yml +0 -46
- codontrace-0.3.0b2/CHANGELOG.md +0 -191
- codontrace-0.3.0b2/PKG-INFO +0 -575
- codontrace-0.3.0b2/README.md +0 -523
- codontrace-0.3.0b2/RELEASE_EVIDENCE.md +0 -47
- codontrace-0.3.0b2/docs/CLAIM_CONTROL.md +0 -3
- codontrace-0.3.0b2/docs/CLAIM_LADDER.md +0 -30
- codontrace-0.3.0b2/docs/FEATURE_WIRING_MATRIX.md +0 -25
- codontrace-0.3.0b2/docs/LLM_REVIEW_AND_RULE_API.md +0 -15
- codontrace-0.3.0b2/docs/PHASE2_SCIENTIFIC_EVIDENCE_LADDER.md +0 -31
- codontrace-0.3.0b2/docs/SCIENTIFIC_CLAIM_LADDER.md +0 -42
- codontrace-0.3.0b2/docs/SCIENTIFIC_EXPERIMENT_PROTOCOL.md +0 -5
- codontrace-0.3.0b2/docs/SOCIAL_COLLECTIVE_INTELLIGENCE_PROTOCOL.md +0 -21
- codontrace-0.3.0b2/docs/scientific_freshness_matrix_integration.md +0 -9
- codontrace-0.3.0b2/src/codontrace/genesis/engine_FULL_RESTORE_0.3.0b2.py +0 -3518
- codontrace-0.3.0b2/src/codontrace.egg-info/PKG-INFO +0 -575
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/.github/workflows/publish-pypi.yml +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/LICENSE +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/SECURITY.md +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/docs/ACTION_WIRING_MATRIX.md +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/docs/FEATURE_MATURITY_STATUS.md +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/docs/GENESIS_API_FOR_UI.md +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/docs/GENESIS_FINAL_HARDENING.md +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/docs/GENESIS_RUNTIME_CONTRACT.md +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/docs/LIBRARY_AS_TOOL_DIGEST_AND_CAPSULE_POLICY.md +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/docs/MULTISEED_EXPERIMENTS.md +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/docs/MUTATION_OPERATOR_MATURITY_MATRIX.md +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/docs/PHASE1_STRONG_CORE_ACCEPTANCE.md +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/docs/PHASE2_ARTIFACT_MANIFEST_SCHEMA.md +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/docs/PHASE2_EVIDENCE_PROTOCOL.md +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/docs/PHASE2_RUNTIME_WIRING_MATRIX.md +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/docs/PHASE2_STRONG_CLAIM_CHECKLIST.md +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/docs/PHASE3_EVIDENCE_PROTOCOL.md +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/docs/REPLAY_AND_ARTIFACTS.md +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/docs/RULE_VALIDATION_AND_SECURITY.md +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/docs/public_api_integration.md +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/docs/publishing.md +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/docs/release_checklist.md +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/_path_bootstrap.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/causal_replay_demo.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/custom_action.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/diversity_metrics.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/experiment_quick.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_ablation_protocol.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_adf.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_api_audit.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_api_stability_map.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_artifact_hygiene.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_benchmark_scenario.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_benchmark_smoke.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_capsule_hook.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_capsule_transfer.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_capsule_utility_pilot.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_causal_graph.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_claim_audit.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_claim_downgrade_rules.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_custom_action_status.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_custom_elements.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_custom_fitness_signal.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_custom_genome_spec.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_custom_scheduler_topology.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_custom_substrate_rules.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_d0_baseline.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_discovery_hooks.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_discovery_witness.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_docs_consistency.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_documentation_audit.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_dynamic_environment.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_evidence_bundle.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_evidence_completeness.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_evidence_lineage.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_evidence_quality_score.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_evolution_pilot.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_external_replication_record.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_final_examples_matrix.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_final_gate_summary.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_final_non_claim_statement.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_final_release_manifest.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_foundation.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_integration_end_to_end_validation.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_life_loop.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_limitations.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_mature_alpha_readiness.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_memory.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_memory_delayed_reward_pilot.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_multi_generation_evidence.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_paper_evidence_bundle.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_phase3_validation_smoke.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_phase_b_final_smoke.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_phase_e_substrate.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_population.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_pre_registered_metric.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_qd_archive_hardened.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_qd_archive_hook.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_qd_selection_pilot.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_release_candidate_checklist.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_release_readiness_profile.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_reproducibility_summary.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_research_validation_bundle.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_scenario_suite.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_scientific_evidence_pack.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_sexual_recombination.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_social_partner_pilot.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_statistical_protocol.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_stigmergy_layer.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_strong_library_phase2_smoke.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_supply_chain_audit.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_toolchain_pilot.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_unified_smoke_run.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_validation_matrix.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/genesis_validation_pack.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/lineage_seeded_agents.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/object_dict_roundtrip.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/plugin_action_skeleton.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/profiled_agents.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/quick_factory.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/quickstart.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/scenario_config.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/simulation_multi_agent.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/world_event_timeline.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/examples/world_objects.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/setup.cfg +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/_numeric.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/_types.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/actions.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/agent.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/codon.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/energy.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/errors.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/experiment.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/factory.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/ablation.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/adf.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/adf_lifecycle.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/adf_runtime.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/adf_validation.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/analyst.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/api_audit.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/atp.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/behavior.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/canonical.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/capsule_utility.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/capsule_validation.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/causal_graph.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/causal_runtime.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/causal_validation.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/checkpointing.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/claim_audit.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/codon_table.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/collective_intelligence.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/contribution_ledger.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/controls.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/curriculum.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/death.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/diagnostics.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/discovery.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/discovery_gate.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/discovery_protocol.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/discovery_runner.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/discovery_witness.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/elements.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/engine.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/event_graph.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/evidence.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/evidence_bundle.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/evidence_consistency.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/evidence_lineage.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/evidence_registry.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/evidence_status.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/evidence_validation.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/evolution.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/example_smoke.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/experiment.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/final_release_manifest.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/fitness.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/frames.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/generalization.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/genome_spec.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/innovation_protection.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/intervention.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/learning.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/limitations.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/lineage_consistency.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/liveness.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/mature_alpha.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/memory.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/memory_evidence.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/multiseed.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/odd.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/open_endedness.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/paper_companion.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/phase1_runtime_maturity.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/phase_b_scientific_maturity.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/plugins.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/population_runner.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/qd_descriptors.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/qd_search.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/quality_diversity.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/release_candidate.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/release_readiness.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/replay.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/replay_policy_audit.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/research_validation.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/review.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/ribosome.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/role.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/rules.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/runtime_wiring_audit.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/scale_performance.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/scenario_suite.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/scientific_evidence.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/selection.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/social.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/statistical_report.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/status.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/structural_mutation.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/substrate.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/substrate_runtime.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/swarm_metrics.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/toolchain.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/translation_profile.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/validation.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genesis/validation_matrix.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/genome.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/initialization.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/metrics/__init__.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/metrics/diversity.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/mutation.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/plugins.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/py.typed +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/recorder.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/replay.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/rng.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/scenario.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/scheduling.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/simulation.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/specs.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace/topology.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace.egg-info/dependency_links.txt +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace.egg-info/requires.txt +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/src/codontrace.egg-info/top_level.txt +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/__init__.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/genesis/test_capsule_population_runtime_phase2.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/genesis/test_causal_graph_organism_integration.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/genesis/test_memory_to_causal_runtime.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/genesis_gates/__init__.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/genesis_gates/test_action_wiring_matrix.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/genesis_gates/test_behavior_fitness_breakdown.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/genesis_gates/test_discovery_runner_contract.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/genesis_gates/test_engine_spec_end_to_end.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/genesis_gates/test_evolution_capacity_overrides_reproduction_capacity.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/genesis_gates/test_full_connection_smoke.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/genesis_gates/test_genesis_compatibility_matrix_exists.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/genesis_gates/test_llm_review_api_contract.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/genesis_gates/test_phase3_no_legacy_shadow_definitions.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/genesis_gates/test_phase3_polish_rule_review_spec_hooks.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/genesis_gates/test_phase3_polish_substrate_bridge.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/genesis_gates/test_population_selection_policy.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/genesis_gates/test_post_review_manifest_replay_review_rule_contracts.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/genesis_gates/test_qd_population_integration.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/genesis_gates/test_reproduction_child_inherits_learning_runtime_config.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/genesis_gates/test_result_public_surface_contract.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/genesis_gates/test_rule_validation_pipeline.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/genesis_gates/test_run_manifest_replay_bundle.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/genesis_gates/test_toolchain_primitives_and_failures.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/release/test_release_artifact_has_no_cache_files.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/release/test_release_manifest_and_mypy_optional_deps.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/science_gates/__init__.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/science_gates/test_a25_final_scientific_library_hardening.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/science_gates/test_a25_strengthened_acceptance_patch.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/science_gates/test_adf_expanded_primitive_source_records.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/science_gates/test_adf_macro_lifecycle.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/science_gates/test_advanced_adf_runtime_validation.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/science_gates/test_advanced_capsule_discovery_multiseed.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/science_gates/test_advanced_causal_validation.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/science_gates/test_advanced_manifest_rules_claims.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/science_gates/test_advanced_qd_search_loop.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/science_gates/test_benchmark_scenario_suite.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/science_gates/test_causal_intervention_protocol.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/science_gates/test_claim_gate_ignores_user_supplied_claim_gate_decision_digest.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/science_gates/test_discovery_gate_requires_d0_shadow_persistence_ablation.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/science_gates/test_evidence_validation_context_to_dict_includes_semantic_proxy_digests.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/science_gates/test_evidence_validation_protocol_execution_is_lazy.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/science_gates/test_genesis_odd_report.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/science_gates/test_integration_claim_gate_no_fake_positive.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/science_gates/test_intervention_supported_requires_validated_intervention_result_artifact.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/science_gates/test_metadata_only_intervention_supported_rejected.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/science_gates/test_metadata_only_oee_candidate_rejected.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/science_gates/test_multiseed_experiment_runner.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/science_gates/test_oee_candidate_requires_validated_oee_report_artifact.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/science_gates/test_phase2_strict_acceptance_patch.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/science_gates/test_phase2_strong_acceptance_patch.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/science_gates/test_phase3_digest_and_release_pack_strictness.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/science_gates/test_phase3_examples_no_fake_evidence.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/science_gates/test_phase3_final_acceptance_blockers.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/science_gates/test_phase3_maximum_validation_public_api.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/science_gates/test_phase3_oee_threshold_consistency.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/science_gates/test_qd_user_defined_descriptors.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/science_gates/test_replay_digest_policy_sweep.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/science_gates/test_replay_integrity_resolve_class_path_validation.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/science_gates/test_scientific_protocol_executed_false_for_metadata_only_pseudo_evidence.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/science_gates/test_statistical_report_bootstrap_ci.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/science_gates/test_strong_library_phase1_descriptor_benchmark_manifest.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/science_gates/test_strong_library_phase1_source_map.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/science_gates/test_strong_library_phase2_adf_macro.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/science_gates/test_strong_library_phase2_claim_manifest.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/science_gates/test_strong_library_phase2_contribution_innovation.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/science_gates/test_strong_library_phase2_runtime_completion.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/science_gates/test_strong_library_phase2_variable_genome.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/science_gates/test_substrate_runtime_bridge.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_action_registry.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_agent.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_agent_explain_local.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_agent_quick.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_api_signature.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_attempt_cost_model.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_capsule_utility_science.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_codon.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_contract_polish_a8.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_custom_action_replay.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_custom_actions.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_custom_cells.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_developer_experience.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_energy.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_energy_effects.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_errors.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_examples.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_experiment.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_explanation_adversarial.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_export_import.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_final_scenario_contract.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_generalization_protocol_science.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_a13_remaining_fixes.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_a15_regressions.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_a16_regressions.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_a19_qd_ablation_protocol.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_a20_api_hardening.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_a21_research_validation_rc.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_a22_rc_scientific_evidence.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_a23_mature_alpha.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_a24_finalization.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_a25_directive_runtime_fixes.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_a26_evolution_capable_patch.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_a27_final_hardening.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_a28_science_hardening.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_a29_programmer_hardening.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_a30_final_audit_hardening.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_a31_source_checkout_portability.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_a32_birth_mutation_inheritance.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_a33_death_energy_export_hardening.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_a34_deadcode_wiring_scientific_hardening.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_a35_developer_evidence_chain_hardening.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_action_status_registry.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_adf_codon_extension.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_adf_genome_spec.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_adf_patterns.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_adf_scoring.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_adf_serialization.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_atp.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_behavior_descriptor.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_capsule_emission.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_capsule_hooks.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_capsule_read_adoption.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_capsule_store.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_capsule_transfer_metrics.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_causal_graph.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_causal_graph_atp.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_causal_graph_memory.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_causal_graph_serialization.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_causal_graph_trace_update.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_causal_mechanism_hardening.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_causal_mechanism_runtime_wiring_integrity.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_codon_table.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_codon_table_spec.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_collective_intelligence_claim_gate.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_curriculum_environment_coevolution.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_discovery_hooks.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_discovery_witness_qd.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_dual_atp.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_dynamic_vocabulary.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_element_registry.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_elements.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_extensibility_backcompat.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_extensibility_no_app_drift.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_fitness.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_fitness_signal_registry.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_generalization_snapshots.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_genome_spec.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_integration_adf_runtime_unification.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_integration_end_to_end_validation.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_integration_evidence_consistency.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_integration_examples_compatibility.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_integration_public_api_manifest.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_integration_public_api_unification.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_integration_reference_integrity.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_integration_release_zip_integrity.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_integration_runtime_wiring.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_integration_scientific_freshness_matrix.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_learning.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_lineage.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_liveness.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_memory.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_mutation.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_mutation_genome_spec.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_mutation_operator_maturity.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_organism.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_package_hygiene.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_phase1_adf_runtime_execution.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_phase1_capsule_ttl_locality.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_phase1_energy_effect_organism.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_phase1_from_bits_spec.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_phase1_population_stigmergy_integration.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_phase1_runtime_contract.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_phase2_adf_usefulness_claim_thresholds.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_phase2_claim_digest_consistency.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_phase2_finite_guards.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_phase2_gap_public_apis.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_phase2_manifest_validation_strict.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_phase2_semantic_proxy_engine_wiring.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_phase_b_no_collapsed_alias_schemas.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_phase_b_public_api_bindings.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_phase_b_scientific_maturity_report.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_phase_c_dynamic_environment.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_plugin_api_safety.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_population.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_population_capsule_audit.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_population_memory_audit.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_reproduction.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_result_consistency_validator.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_ribosome.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_role_detection_runtime.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_scale_ladder_benchmark.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_scheduler_protocol.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_social_behavior_descriptor_counts.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_social_heldout_distinctness.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_stigmergy_layer.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_substrate.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_substrate_physics_config.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_substrate_rule_config.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_swarm_metrics_controls.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_topology_protocol.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_trace_memory_audit.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_v3_core_regression_patch.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_v3_rereview_integrity.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genesis_world_mapping.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_genome.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_initialization.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_ledger_refs.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_memory_delayed_evidence_science.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_mutation.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_mutation_fuzz.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_no_side_effects.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_object_serialization.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_plugins.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_publish_readiness_a7.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_replay.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_replay_hash.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_replay_snapshot_continuity.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_rng.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_scenario_diversity.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_scenario_runtime_logic_a10.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_scenario_runtime_logic_a11.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_simulation.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_timeline_replay.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_trace.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_types.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_world.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_world_events.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tests/test_world_objects.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tools/audit_evidence_consistency.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tools/audit_examples_integration.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tools/audit_genesis_references.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tools/audit_package_hygiene.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tools/audit_release_zip.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tools/audit_runtime_wiring.py +0 -0
- {codontrace-0.3.0b2 → codontrace-0.3.0b4.dev0}/tools/build_clean_release_zip.py +0 -0
|
@@ -0,0 +1,136 @@
|
|
|
1
|
+
name: CI
|
|
2
|
+
|
|
3
|
+
"on":
|
|
4
|
+
push:
|
|
5
|
+
pull_request:
|
|
6
|
+
|
|
7
|
+
permissions:
|
|
8
|
+
contents: read
|
|
9
|
+
|
|
10
|
+
env:
|
|
11
|
+
FORCE_JAVASCRIPT_ACTIONS_TO_NODE24: "true"
|
|
12
|
+
PIP_DISABLE_PIP_VERSION_CHECK: "1"
|
|
13
|
+
|
|
14
|
+
jobs:
|
|
15
|
+
ubuntu-full-tests:
|
|
16
|
+
name: Full pytest (${{ matrix.os }}, Python ${{ matrix.python-version }})
|
|
17
|
+
runs-on: ${{ matrix.os }}
|
|
18
|
+
timeout-minutes: 60
|
|
19
|
+
strategy:
|
|
20
|
+
fail-fast: false
|
|
21
|
+
matrix:
|
|
22
|
+
os: [ubuntu-latest]
|
|
23
|
+
python-version: ["3.11", "3.12", "3.13", "3.14"]
|
|
24
|
+
steps:
|
|
25
|
+
- name: Checkout
|
|
26
|
+
uses: actions/checkout@v6
|
|
27
|
+
|
|
28
|
+
- name: Set up Python
|
|
29
|
+
uses: actions/setup-python@v6
|
|
30
|
+
with:
|
|
31
|
+
python-version: ${{ matrix.python-version }}
|
|
32
|
+
cache: pip
|
|
33
|
+
|
|
34
|
+
- name: Install test dependencies
|
|
35
|
+
run: |
|
|
36
|
+
python -m pip install --upgrade pip setuptools wheel
|
|
37
|
+
python -m pip install -e . pytest
|
|
38
|
+
|
|
39
|
+
- name: Compile package, tests, examples, and tools
|
|
40
|
+
run: python -m compileall -q src tests examples tools
|
|
41
|
+
|
|
42
|
+
- name: Enforce core boundary with AST import guard
|
|
43
|
+
run: python tools/check_core_boundary.py
|
|
44
|
+
|
|
45
|
+
- name: Reject probe leftovers in the checkout
|
|
46
|
+
run: |
|
|
47
|
+
python - <<'PY'
|
|
48
|
+
import fnmatch
|
|
49
|
+
from pathlib import Path
|
|
50
|
+
|
|
51
|
+
skip_parts = {".git", ".venv", "venv", "__pycache__"}
|
|
52
|
+
|
|
53
|
+
def is_leftover(path: Path) -> bool:
|
|
54
|
+
name = path.name
|
|
55
|
+
if name.startswith(".grok_write_probe"):
|
|
56
|
+
return True
|
|
57
|
+
if name.startswith(".size_test_") and path.suffix == ".txt":
|
|
58
|
+
return True
|
|
59
|
+
return any(
|
|
60
|
+
fnmatch.fnmatch(name, pattern)
|
|
61
|
+
for pattern in ("*_FULL_RESTORE*", "*_backup*", "*.orig")
|
|
62
|
+
)
|
|
63
|
+
|
|
64
|
+
junk = sorted(
|
|
65
|
+
p
|
|
66
|
+
for p in Path(".").rglob("*")
|
|
67
|
+
if p.is_file()
|
|
68
|
+
and skip_parts.isdisjoint(p.parts)
|
|
69
|
+
and is_leftover(p)
|
|
70
|
+
)
|
|
71
|
+
if junk:
|
|
72
|
+
raise SystemExit("probe leftovers must not ship: " + ", ".join(map(str, junk)))
|
|
73
|
+
print("no probe leftovers")
|
|
74
|
+
PY
|
|
75
|
+
|
|
76
|
+
- name: Run full test suite
|
|
77
|
+
run: python -m pytest tests --disable-plugin-autoload
|
|
78
|
+
|
|
79
|
+
core-smoke-cross-os:
|
|
80
|
+
name: Core smoke (${{ matrix.os }}, Python ${{ matrix.python-version }})
|
|
81
|
+
runs-on: ${{ matrix.os }}
|
|
82
|
+
timeout-minutes: 30
|
|
83
|
+
strategy:
|
|
84
|
+
fail-fast: false
|
|
85
|
+
matrix:
|
|
86
|
+
os: [windows-latest, macos-latest]
|
|
87
|
+
python-version: ["3.11", "3.12", "3.13", "3.14"]
|
|
88
|
+
steps:
|
|
89
|
+
- name: Checkout
|
|
90
|
+
uses: actions/checkout@v6
|
|
91
|
+
|
|
92
|
+
- name: Set up Python
|
|
93
|
+
uses: actions/setup-python@v6
|
|
94
|
+
with:
|
|
95
|
+
python-version: ${{ matrix.python-version }}
|
|
96
|
+
cache: pip
|
|
97
|
+
|
|
98
|
+
- name: Install test dependencies
|
|
99
|
+
run: |
|
|
100
|
+
python -m pip install --upgrade pip setuptools wheel
|
|
101
|
+
python -m pip install -e . pytest
|
|
102
|
+
|
|
103
|
+
- name: Compile package, tests, examples, and tools
|
|
104
|
+
run: python -m compileall -q src tests examples tools
|
|
105
|
+
|
|
106
|
+
- name: Enforce core boundary with AST import guard
|
|
107
|
+
run: python tools/check_core_boundary.py
|
|
108
|
+
|
|
109
|
+
- name: Run release-critical tests
|
|
110
|
+
run: python -m pytest tests/test_export_import.py tests/test_api_signature.py tests/test_genesis_causal_mechanism_hardening.py tests/test_genesis_causal_mechanism_runtime_wiring_integrity.py tests/test_genesis_integration_public_api_unification.py tests/test_genesis_integration_runtime_wiring.py tests/test_genesis_eval_bugfixes.py tests/release tests/genesis_gates --disable-plugin-autoload
|
|
111
|
+
|
|
112
|
+
lint-type:
|
|
113
|
+
name: Lint and typecheck (Ubuntu, Python 3.12)
|
|
114
|
+
runs-on: ubuntu-latest
|
|
115
|
+
timeout-minutes: 20
|
|
116
|
+
continue-on-error: true
|
|
117
|
+
steps:
|
|
118
|
+
- name: Checkout
|
|
119
|
+
uses: actions/checkout@v6
|
|
120
|
+
|
|
121
|
+
- name: Set up Python
|
|
122
|
+
uses: actions/setup-python@v6
|
|
123
|
+
with:
|
|
124
|
+
python-version: "3.12"
|
|
125
|
+
cache: pip
|
|
126
|
+
|
|
127
|
+
- name: Install lint and typecheck dependencies
|
|
128
|
+
run: |
|
|
129
|
+
python -m pip install --upgrade pip setuptools wheel
|
|
130
|
+
python -m pip install -e ".[dev]"
|
|
131
|
+
|
|
132
|
+
- name: Ruff
|
|
133
|
+
run: python -m ruff check src tests
|
|
134
|
+
|
|
135
|
+
- name: Mypy
|
|
136
|
+
run: python -m mypy --strict src
|