README.md
pyproject.toml
jarvis_core/__init__.py
jarvis_core/agents.py
jarvis_core/alignment.py
jarvis_core/app.py
jarvis_core/audio_script.py
jarvis_core/autonomous_loop.py
jarvis_core/bibliography.py
jarvis_core/bibtex.py
jarvis_core/bibtex_utils.py
jarvis_core/budget_policy.py
jarvis_core/bundle.py
jarvis_core/bundle_layout.py
jarvis_core/bundle_v2.py
jarvis_core/calendar_builder.py
jarvis_core/career_engines.py
jarvis_core/career_planner.py
jarvis_core/chain_builder.py
jarvis_core/changelog_generator.py
jarvis_core/claim.py
jarvis_core/claim_export.py
jarvis_core/cli.py
jarvis_core/comparison.py
jarvis_core/competing_hypothesis.py
jarvis_core/config_loader.py
jarvis_core/config_utils.py
jarvis_core/context_packager.py
jarvis_core/cross_field.py
jarvis_core/day_in_life.py
jarvis_core/diff_engine.py
jarvis_core/disk_cache.py
jarvis_core/draft_generator.py
jarvis_core/education.py
jarvis_core/email_generator.py
jarvis_core/enforce.py
jarvis_core/enforcement.py
jarvis_core/errors.py
jarvis_core/evidence_qa.py
jarvis_core/execution_engine.py
jarvis_core/executor.py
jarvis_core/failure_predictor.py
jarvis_core/failure_simulator.py
jarvis_core/feasibility.py
jarvis_core/figure_table_registry.py
jarvis_core/funding_cliff.py
jarvis_core/gap_analysis.py
jarvis_core/goldset.py
jarvis_core/grader.py
jarvis_core/grant_optimizer.py
jarvis_core/heatmap.py
jarvis_core/hitl.py
jarvis_core/html_extractor.py
jarvis_core/hypothesis.py
jarvis_core/index_builder.py
jarvis_core/journal_targeting.py
jarvis_core/kill_switch.py
jarvis_core/knowledge_graph.py
jarvis_core/lab_culture.py
jarvis_core/lab_to_startup.py
jarvis_core/lambda_modules.py
jarvis_core/living_review.py
jarvis_core/llm.py
jarvis_core/llm_utils.py
jarvis_core/logic_citation.py
jarvis_core/memory_utils.py
jarvis_core/meta_science.py
jarvis_core/method_trend.py
jarvis_core/model_system.py
jarvis_core/module_registry.py
jarvis_core/package_builder.py
jarvis_core/paper_vector.py
jarvis_core/paradigm.py
jarvis_core/pdf_extractor.py
jarvis_core/pi_succession.py
jarvis_core/pi_support.py
jarvis_core/planner.py
jarvis_core/positioning.py
jarvis_core/pretrain_citation_reconstruction.py
jarvis_core/pretrain_meta_core.py
jarvis_core/py.typed
jarvis_core/quality_gate.py
jarvis_core/recommendation.py
jarvis_core/redact_logging.py
jarvis_core/reference.py
jarvis_core/reference_formatter.py
jarvis_core/registry.py
jarvis_core/rehearsal.py
jarvis_core/remediation.py
jarvis_core/reproducibility_cert.py
jarvis_core/result.py
jarvis_core/retriever.py
jarvis_core/retry.py
jarvis_core/retry_controller.py
jarvis_core/review_mode.py
jarvis_core/reviewer_persona.py
jarvis_core/ris.py
jarvis_core/roi_engine.py
jarvis_core/router.py
jarvis_core/run_config.py
jarvis_core/scheduler_engine.py
jarvis_core/scientific_linter.py
jarvis_core/settings.py
jarvis_core/sigma_modules.py
jarvis_core/spec_lint.py
jarvis_core/student_portfolio.py
jarvis_core/task.py
jarvis_core/task_model.py
jarvis_core/thinking_engines.py
jarvis_core/trace.py
jarvis_core/trend_watcher.py
jarvis_core/validation.py
jarvis_core/vector_index.py
jarvis_core/web_fetcher.py
jarvis_core/weekly_pack.py
jarvis_core/workflow_runner.py
jarvis_core/workflow_tuner.py
jarvis_core/active_learning/__init__.py
jarvis_core/active_learning/cli.py
jarvis_core/active_learning/engine.py
jarvis_core/active_learning/query.py
jarvis_core/active_learning/stopping.py
jarvis_core/advanced/__init__.py
jarvis_core/advanced/features.py
jarvis_core/agents/orchestrator.py
jarvis_core/ai/features.py
jarvis_core/ai/gemini_client.py
jarvis_core/analysis/__init__.py
jarvis_core/analysis/citation_network.py
jarvis_core/analysis/citation_stance.py
jarvis_core/analysis/comparison.py
jarvis_core/analysis/contradiction.py
jarvis_core/analysis/contradiction_detector.py
jarvis_core/analysis/evidence_mapper.py
jarvis_core/analysis/grade_system.py
jarvis_core/analysis/impact.py
jarvis_core/analysis/knowledge_graph.py
jarvis_core/analysis/network.py
jarvis_core/analysis/review_generator.py
jarvis_core/analysis/trends.py
jarvis_core/api/__init__.py
jarvis_core/api/arxiv.py
jarvis_core/api/external.py
jarvis_core/api/pubmed.py
jarvis_core/api/run_api.py
jarvis_core/api/semantic_scholar.py
jarvis_core/api/sla.py
jarvis_core/artifacts/__init__.py
jarvis_core/artifacts/adapters.py
jarvis_core/artifacts/analyzer.py
jarvis_core/artifacts/claim_set.py
jarvis_core/artifacts/exporter.py
jarvis_core/artifacts/schema.py
jarvis_core/audit/__init__.py
jarvis_core/audit/report.py
jarvis_core/auth/__init__.py
jarvis_core/auth/api_key.py
jarvis_core/bibtex/__init__.py
jarvis_core/bibtex/fetcher.py
jarvis_core/browser/__init__.py
jarvis_core/browser/recording.py
jarvis_core/browser/schema.py
jarvis_core/browser/security.py
jarvis_core/browser/subagent.py
jarvis_core/browser/agents/__init__.py
jarvis_core/browser/agents/arxiv.py
jarvis_core/browser/agents/pdf_download.py
jarvis_core/browser/agents/pubmed.py
jarvis_core/budget/__init__.py
jarvis_core/budget/budget.py
jarvis_core/budget/policy.py
jarvis_core/bundle/__init__.py
jarvis_core/bundle/assembler.py
jarvis_core/cache/__init__.py
jarvis_core/cache/backend.py
jarvis_core/cache/disk_cache.py
jarvis_core/cache/key_contract.py
jarvis_core/cache/kv_cache.py
jarvis_core/cache/multi_level.py
jarvis_core/cache/pipeline_cache.py
jarvis_core/cache/policy.py
jarvis_core/cache/redis_adapter.py
jarvis_core/cache/sqlite_cache.py
jarvis_core/chunking/engine.py
jarvis_core/citation/__init__.py
jarvis_core/citation/analyzer.py
jarvis_core/citation/context_extractor.py
jarvis_core/citation/generator.py
jarvis_core/citation/graph.py
jarvis_core/citation/influence.py
jarvis_core/citation/network.py
jarvis_core/citation/relevance.py
jarvis_core/citation/stance_classifier.py
jarvis_core/cli_v4/__init__.py
jarvis_core/cli_v4/main.py
jarvis_core/collaboration/__init__.py
jarvis_core/collaboration/comments.py
jarvis_core/collaboration/versioning.py
jarvis_core/compliance/license.py
jarvis_core/compliance/prisma.py
jarvis_core/config/__init__.py
jarvis_core/config/feature_flags.py
jarvis_core/connectors/__init__.py
jarvis_core/connectors/pmc.py
jarvis_core/connectors/pubmed.py
jarvis_core/contracts/__init__.py
jarvis_core/contracts/types.py
jarvis_core/contradiction/__init__.py
jarvis_core/contradiction/detector.py
jarvis_core/contradiction/normalizer.py
jarvis_core/contradiction/resolution.py
jarvis_core/contradiction/resolver.py
jarvis_core/contradiction/schema.py
jarvis_core/contradiction/semantic_detector.py
jarvis_core/cost_planner/__init__.py
jarvis_core/cost_planner/cost_model.py
jarvis_core/cost_planner/pareto.py
jarvis_core/cost_planner/quality_gain.py
jarvis_core/database/__init__.py
jarvis_core/database/pool.py
jarvis_core/decision/__init__.py
jarvis_core/decision/elicitation.py
jarvis_core/decision/model.py
jarvis_core/decision/planner.py
jarvis_core/decision/report.py
jarvis_core/decision/risk_factors.py
jarvis_core/decision/schema.py
jarvis_core/decision/simulator.py
jarvis_core/dedup/__init__.py
jarvis_core/dedup/dedup_engine.py
jarvis_core/deploy/__init__.py
jarvis_core/deploy/canary.py
jarvis_core/deploy/cloud_run.py
jarvis_core/devtools/__init__.py
jarvis_core/devtools/benchmark.py
jarvis_core/devtools/ci.py
jarvis_core/devtools/debug.py
jarvis_core/devtools/profiler.py
jarvis_core/embeddings/__init__.py
jarvis_core/embeddings/bm25.py
jarvis_core/embeddings/chroma_store.py
jarvis_core/embeddings/embedder.py
jarvis_core/embeddings/hybrid.py
jarvis_core/embeddings/model.py
jarvis_core/embeddings/sentence_transformer.py
jarvis_core/embeddings/specter2.py
jarvis_core/embeddings/vector_store.py
jarvis_core/eval/__init__.py
jarvis_core/eval/ab_testing.py
jarvis_core/eval/aubuc.py
jarvis_core/eval/auto_eval.py
jarvis_core/eval/benchmark.py
jarvis_core/eval/citation_loop.py
jarvis_core/eval/claim_checker.py
jarvis_core/eval/claim_classifier.py
jarvis_core/eval/drift.py
jarvis_core/eval/extended_metrics.py
jarvis_core/eval/failure_taxonomy.py
jarvis_core/eval/goldset_schema.py
jarvis_core/eval/judge.py
jarvis_core/eval/judge_v2.py
jarvis_core/eval/live_runner.py
jarvis_core/eval/metrics_truth.py
jarvis_core/eval/noise_injection.py
jarvis_core/eval/quality_enhancer.py
jarvis_core/eval/quality_gate.py
jarvis_core/eval/regression.py
jarvis_core/eval/regression_runner.py
jarvis_core/eval/score_paper.py
jarvis_core/eval/text_quality.py
jarvis_core/eval/validator.py
jarvis_core/evaluation/__init__.py
jarvis_core/evaluation/counterevidence.py
jarvis_core/evaluation/dataset_governance.py
jarvis_core/evaluation/evaluator.py
jarvis_core/evaluation/evidence_validator.py
jarvis_core/evaluation/fitness.py
jarvis_core/evaluation/gates.py
jarvis_core/evaluation/metrics.py
jarvis_core/evaluation/multi_judge.py
jarvis_core/evaluation/pico_consistency.py
jarvis_core/evidence/__init__.py
jarvis_core/evidence/ensemble.py
jarvis_core/evidence/grader.py
jarvis_core/evidence/llm_classifier.py
jarvis_core/evidence/locator_verifier.py
jarvis_core/evidence/locator_verify.py
jarvis_core/evidence/mapper.py
jarvis_core/evidence/rule_classifier.py
jarvis_core/evidence/schema.py
jarvis_core/evidence/store.py
jarvis_core/evidence/uncertainty.py
jarvis_core/evidence/v2_schema.py
jarvis_core/evidence/validator.py
jarvis_core/evidence/visualizer.py
jarvis_core/executor/tabular_executor.py
jarvis_core/experimental/__init__.py
jarvis_core/experimental/career_engines.py
jarvis_core/experimental/career_planner.py
jarvis_core/experimental/clinical_readiness.py
jarvis_core/experimental/competing_hypothesis.py
jarvis_core/experimental/education.py
jarvis_core/experimental/failure_predictor.py
jarvis_core/experimental/failure_simulator.py
jarvis_core/experimental/feasibility.py
jarvis_core/experimental/funding_cliff.py
jarvis_core/experimental/gap_analysis.py
jarvis_core/experimental/grant_optimizer.py
jarvis_core/experimental/heatmap.py
jarvis_core/experimental/journal_targeting.py
jarvis_core/experimental/lab_culture.py
jarvis_core/experimental/lab_optimizer.py
jarvis_core/experimental/lab_to_startup.py
jarvis_core/experimental/lambda_modules.py
jarvis_core/experimental/negative_results.py
jarvis_core/experimental/paradigm.py
jarvis_core/experimental/pi_succession.py
jarvis_core/experimental/pi_support.py
jarvis_core/experimental/rehearsal.py
jarvis_core/experimental/reproducibility_cert.py
jarvis_core/experimental/roi_engine.py
jarvis_core/experimental/sigma_modules.py
jarvis_core/experimental/student_portfolio.py
jarvis_core/experimental/timeline.py
jarvis_core/experimental/active_learning/__init__.py
jarvis_core/experimental/active_learning/cli.py
jarvis_core/experimental/active_learning/config.py
jarvis_core/experimental/active_learning/engine.py
jarvis_core/experimental/active_learning/stopping.py
jarvis_core/experimental/active_learning/strategies.py
jarvis_core/experimental/evals/ranking_eval.py
jarvis_core/experimental/evals/trick_eval.py
jarvis_core/experimental/finance/__init__.py
jarvis_core/experimental/finance/optimizer.py
jarvis_core/experimental/finance/scenarios.py
jarvis_core/experimental/finance/schema.py
jarvis_core/experimental/prisma/__init__.py
jarvis_core/experimental/prisma/generator.py
jarvis_core/experimental/prisma/schema.py
jarvis_core/export/__init__.py
jarvis_core/export/docx_builder.py
jarvis_core/export/package_builder.py
jarvis_core/export/pptx_builder.py
jarvis_core/exporters/notebooklm.py
jarvis_core/external/sources.py
jarvis_core/extraction/__init__.py
jarvis_core/extraction/claim_extractor.py
jarvis_core/extraction/coi.py
jarvis_core/extraction/funding.py
jarvis_core/extraction/pdf_extractor.py
jarvis_core/extraction/semantic_search.py
jarvis_core/extraction/structured.py
jarvis_core/extraction/table_extractor.py
jarvis_core/feature_engineering/statistical.py
jarvis_core/feedback/__init__.py
jarvis_core/feedback/collector.py
jarvis_core/feedback/feature_extractor.py
jarvis_core/feedback/history_store.py
jarvis_core/feedback/risk_model.py
jarvis_core/feedback/schema.py
jarvis_core/feedback/store.py
jarvis_core/feedback/suggestion_engine.py
jarvis_core/finance/__init__.py
jarvis_core/finance/scenarios.py
jarvis_core/finance/schema.py
jarvis_core/graphrag/engine.py
jarvis_core/index/__init__.py
jarvis_core/index/bm25_store.py
jarvis_core/index/dedup.py
jarvis_core/index/incremental_state.py
jarvis_core/index/pipeline.py
jarvis_core/infra/iac.py
jarvis_core/infrastructure/ecosystem.py
jarvis_core/ingestion/__init__.py
jarvis_core/ingestion/figure_extractor.py
jarvis_core/ingestion/modalities.py
jarvis_core/ingestion/normalizer.py
jarvis_core/ingestion/pdf_extractor.py
jarvis_core/ingestion/pdf_parser.py
jarvis_core/ingestion/pipeline.py
jarvis_core/ingestion/robust_extractor.py
jarvis_core/ingestion/table_extractor.py
jarvis_core/integrations/__init__.py
jarvis_core/integrations/additional.py
jarvis_core/integrations/external.py
jarvis_core/integrations/mendeley.py
jarvis_core/integrations/notebooklm.py
jarvis_core/integrations/notion.py
jarvis_core/integrations/obsidian.py
jarvis_core/integrations/obsidian_sync.py
jarvis_core/integrations/obsidian_sync_v2.py
jarvis_core/integrations/pagerduty.py
jarvis_core/integrations/pubmed.py
jarvis_core/integrations/ris_bibtex.py
jarvis_core/integrations/scale.py
jarvis_core/integrations/slack.py
jarvis_core/integrations/slack_bot.py
jarvis_core/integrations/watch.py
jarvis_core/integrations/zotero.py
jarvis_core/intelligence/__init__.py
jarvis_core/intelligence/action_planner.py
jarvis_core/intelligence/decision.py
jarvis_core/intelligence/decision_item.py
jarvis_core/intelligence/evaluator_v2.py
jarvis_core/intelligence/goldset_index.py
jarvis_core/intelligence/insights.py
jarvis_core/intelligence/mandatory_search.py
jarvis_core/intelligence/metrics_collector.py
jarvis_core/intelligence/outcome_tracker.py
jarvis_core/intelligence/patterns.py
jarvis_core/intelligence/question_generator.py
jarvis_core/intelligence/research_partner.py
jarvis_core/intelligence/similarity.py
jarvis_core/iter/__init__.py
jarvis_core/iter/phase8_features.py
jarvis_core/kb/__init__.py
jarvis_core/kb/citations.py
jarvis_core/kb/dedup.py
jarvis_core/kb/indexer.py
jarvis_core/kb/merger.py
jarvis_core/kb/neo4j_adapter.py
jarvis_core/kb/normalizer.py
jarvis_core/kb/quality_tags.py
jarvis_core/kb/rag.py
jarvis_core/kb/schema.py
jarvis_core/kb/topic_router.py
jarvis_core/kb/weekly_pack.py
jarvis_core/knowledge/__init__.py
jarvis_core/knowledge/graph.py
jarvis_core/knowledge/store.py
jarvis_core/kpi/__init__.py
jarvis_core/kpi/phase_kpi.py
jarvis_core/kpi/reporter.py
jarvis_core/kpi/tracker.py
jarvis_core/lab/__init__.py
jarvis_core/lab/automation.py
jarvis_core/lab/experiments.py
jarvis_core/learning/active_learning.py
jarvis_core/llm/__init__.py
jarvis_core/llm/adapter.py
jarvis_core/llm/ensemble.py
jarvis_core/llm/llamacpp_adapter.py
jarvis_core/llm/model_router.py
jarvis_core/llm/ollama_adapter.py
jarvis_core/logging/__init__.py
jarvis_core/logging/run_log.py
jarvis_core/map/__init__.py
jarvis_core/map/bridges.py
jarvis_core/map/clusters.py
jarvis_core/map/neighborhood.py
jarvis_core/map/path_finder.py
jarvis_core/map/similarity_explain.py
jarvis_core/map/timeline_map.py
jarvis_core/mcp/__init__.py
jarvis_core/mcp/chain.py
jarvis_core/mcp/hub.py
jarvis_core/mcp/schema.py
jarvis_core/mcp/servers/__init__.py
jarvis_core/mcp/servers/openalex.py
jarvis_core/mcp/servers/pubmed.py
jarvis_core/mcp/servers/semantic_scholar.py
jarvis_core/memory/__init__.py
jarvis_core/memory/hindsight.py
jarvis_core/metadata/__init__.py
jarvis_core/metadata/extractor.py
jarvis_core/metadata/normalize.py
jarvis_core/metadata/normalizer.py
jarvis_core/monitoring/__init__.py
jarvis_core/monitoring/sentry.py
jarvis_core/multimodal/__init__.py
jarvis_core/multimodal/figure_extractor.py
jarvis_core/multimodal/figure_table.py
jarvis_core/multimodal/multilang.py
jarvis_core/multimodal/scientific.py
jarvis_core/multimodal/table_understander.py
jarvis_core/network/__init__.py
jarvis_core/network/api_wrapper.py
jarvis_core/network/collaboration.py
jarvis_core/network/degradation.py
jarvis_core/network/detector.py
jarvis_core/network/listener.py
jarvis_core/notebooklm/__init__.py
jarvis_core/notebooklm/podcast_prompt.py
jarvis_core/notes/__init__.py
jarvis_core/notes/formatter.py
jarvis_core/notes/note_generator.py
jarvis_core/notes/templates.py
jarvis_core/oa/__init__.py
jarvis_core/oa/oa_resolver.py
jarvis_core/obs/__init__.py
jarvis_core/obs/collector.py
jarvis_core/obs/dashboard.py
jarvis_core/obs/exporter.py
jarvis_core/obs/log_schema.py
jarvis_core/obs/logger.py
jarvis_core/obs/metrics.py
jarvis_core/obs/retention.py
jarvis_core/obs/alerts/__init__.py
jarvis_core/obs/alerts/engine.py
jarvis_core/obs/alerts/schema.py
jarvis_core/observability/__init__.py
jarvis_core/observability/stack.py
jarvis_core/ops/__init__.py
jarvis_core/ops/approval.py
jarvis_core/ops/audit.py
jarvis_core/ops/checkpoint.py
jarvis_core/ops/config.py
jarvis_core/ops/diagnostics.py
jarvis_core/ops/drift_detector.py
jarvis_core/ops/hitl.py
jarvis_core/ops/integration.py
jarvis_core/ops/metrics.py
jarvis_core/ops/rate_limiter.py
jarvis_core/ops/resilience.py
jarvis_core/ops/security.py
jarvis_core/ops/security_ops.py
jarvis_core/ops/snapshot.py
jarvis_core/optimization/__init__.py
jarvis_core/optimization/constraints.py
jarvis_core/optimization/report.py
jarvis_core/optimization/solver.py
jarvis_core/orchestrator/__init__.py
jarvis_core/orchestrator/artifact_store.py
jarvis_core/orchestrator/conversation.py
jarvis_core/orchestrator/multi_agent.py
jarvis_core/orchestrator/schema.py
jarvis_core/orchestrator/agents/__init__.py
jarvis_core/orchestrator/agents/browser.py
jarvis_core/orchestrator/agents/research.py
jarvis_core/orchestrator/agents/synthesis.py
jarvis_core/output/manifest.py
jarvis_core/output/runs_index.py
jarvis_core/paper_scoring/__init__.py
jarvis_core/paper_scoring/scorer.py
jarvis_core/perf/__init__.py
jarvis_core/perf/dashboard.py
jarvis_core/perf/memory_optimizer.py
jarvis_core/perf/profiler.py
jarvis_core/perf/report.py
jarvis_core/perf/slo_policy.py
jarvis_core/perf/trace_spans.py
jarvis_core/performance/mobile.py
jarvis_core/pipelines/__init__.py
jarvis_core/pipelines/executor.py
jarvis_core/pipelines/mvp_pipeline.py
jarvis_core/pipelines/paper_pipeline.py
jarvis_core/pipelines/ranking.py
jarvis_core/pipelines/review_generator.py
jarvis_core/pipelines/run_mvp.py
jarvis_core/pipelines/stage_registry.py
jarvis_core/plugins/__init__.py
jarvis_core/plugins/base.py
jarvis_core/plugins/manager.py
jarvis_core/plugins/plugin_system.py
jarvis_core/plugins/sample_plugins.py
jarvis_core/plugins/zotero_integration.py
jarvis_core/policies/__init__.py
jarvis_core/policies/retry.py
jarvis_core/policies/retry_policy.py
jarvis_core/policies/stop_policy.py
jarvis_core/prompts/__init__.py
jarvis_core/prompts/registry.py
jarvis_core/protein/__init__.py
jarvis_core/protein/biomolecule.py
jarvis_core/provenance/__init__.py
jarvis_core/provenance/aligner.py
jarvis_core/provenance/graph.py
jarvis_core/provenance/linker.py
jarvis_core/provenance/manifest_v2.py
jarvis_core/provenance/schema.py
jarvis_core/provenance/tracker.py
jarvis_core/providers/__init__.py
jarvis_core/providers/anthropic_provider.py
jarvis_core/providers/api_embed.py
jarvis_core/providers/api_llm.py
jarvis_core/providers/base.py
jarvis_core/providers/factory.py
jarvis_core/providers/llm.py
jarvis_core/providers/local_embed.py
jarvis_core/providers/local_llm.py
jarvis_core/providers/openai_provider.py
jarvis_core/ranking/__init__.py
jarvis_core/ranking/base.py
jarvis_core/ranking/explainer.py
jarvis_core/ranking/features.py
jarvis_core/ranking/heuristics.py
jarvis_core/ranking/lgbm_ranker.py
jarvis_core/ranking/logger.py
jarvis_core/ranking/ranker.py
jarvis_core/ranking/scorer.py
jarvis_core/ranking/train.py
jarvis_core/reliability/__init__.py
jarvis_core/reliability/chaos.py
jarvis_core/reliability/circuit_breaker.py
jarvis_core/reliability/disaster_recovery.py
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tests/test_phaseH12_eval_branches.py
tests/test_phaseH13_active_kpi.py
tests/test_phaseH14_plugins_integrations.py
tests/test_phaseH15_multimodal_notes.py
tests/test_phaseH16_20_massive.py
tests/test_phaseH1_deep_analysis.py
tests/test_phaseH21_25_more.py
tests/test_phaseH26_30_final.py
tests/test_phaseH2_deep_analysis.py
tests/test_phaseH3_deep_analysis.py
tests/test_phaseH4_deep_subpackages.py
tests/test_phaseH5_deep_root.py
tests/test_phaseH6_additional_deep.py
tests/test_phaseH7_additional_deep.py
tests/test_phaseH8_ingestion_branches.py
tests/test_phaseH9_advanced_branches.py
tests/test_phaseI1_parametrized.py
tests/test_phaseI2_error_paths.py
tests/test_phaseI3_edge_cases.py
tests/test_phaseI4_integration.py
tests/test_phaseI5_remaining_root.py
tests/test_phaseJ1_advanced_phase6.py
tests/test_phaseJ2_advanced_phase78.py
tests/test_phaseJ3_advanced_phase910.py
tests/test_phaseK1_stages_complete.py
tests/test_phaseK2_lab_complete.py
tests/test_phaseK3_ingestion_retrieval.py
tests/test_phaseL1_generate_report_branches.py
tests/test_phaseL2_lab_branches.py
tests/test_phaseL3_advanced_branches.py
tests/test_phaseM10_final_modules.py
tests/test_phaseM1_massive_mocks.py
tests/test_phaseM2_massive_mocks.py
tests/test_phaseM3_massive_mocks.py
tests/test_phaseM4_massive_mocks.py
tests/test_phaseM5_massive_mocks.py
tests/test_phaseM6_root_modules.py
tests/test_phaseM7_root_modules.py
tests/test_phaseM8_subpackages.py
tests/test_phaseM9_more_subpackages.py
tests/test_phaseN1_precise_branches.py
tests/test_phase_alpha_gamma.py
tests/test_phase_lambda.py
tests/test_phase_omega.py
tests/test_phase_psi.py
tests/test_phase_sigma.py
tests/test_pii_detector.py
tests/test_planner.py
tests/test_planner_coverage.py
tests/test_plugins.py
tests/test_pmc_connector_full.py
tests/test_pmc_mega.py
tests/test_pmc_ultra.py
tests/test_positioning.py
tests/test_pretrain_citation_reconstruction.py
tests/test_pretrain_meta_core.py
tests/test_prisma.py
tests/test_prisma_active.py
tests/test_prisma_coverage.py
tests/test_pubmed_api.py
tests/test_pubmed_api_coverage.py
tests/test_pubmed_api_full.py
tests/test_pubmed_client.py
tests/test_pubmed_massive.py
tests/test_pubmed_source.py
tests/test_pubmed_ultra.py
tests/test_quality_gate.py
tests/test_quality_gate_script.py
tests/test_ranking.py
tests/test_ranking_storage.py
tests/test_rate_limit.py
tests/test_reference.py
tests/test_regression_runner_full.py
tests/test_regression_runner_smoke.py
tests/test_relevance.py
tests/test_reliability_security.py
tests/test_remediation_catalog.py
tests/test_repair_loop_stops_correctly.py
tests/test_repair_planner_priority.py
tests/test_repair_policy_schema.py
tests/test_repeated_sampling.py
tests/test_report_builder.py
tests/test_report_generation.py
tests/test_reproducibility.py
tests/test_reproducibility_snapshot.py
tests/test_research_os.py
tests/test_resolvers.py
tests/test_retraction_watch.py
tests/test_retrieval_advanced.py
tests/test_retriever.py
tests/test_retriever_coverage.py
tests/test_retry_policy.py
tests/test_review_generator_coverage.py
tests/test_review_generator_full.py
tests/test_review_generator_massive.py
tests/test_review_generator_ultra.py
tests/test_router_basic.py
tests/test_router_coverage.py
tests/test_rp24_27.py
tests/test_rp29_37.py
tests/test_rp300_retrieval.py
tests/test_rp305_extra.py
tests/test_rp320_kg.py
tests/test_rp355_llm.py
tests/test_rp370_eval.py
tests/test_rp400_scale.py
tests/test_rp500_infra.py
tests/test_rp510_deploy.py
tests/test_rp520_cloud.py
tests/test_rp533_integrations.py
tests/test_run_api_coverage.py
tests/test_run_api_full.py
tests/test_run_jarvis_integration.py
tests/test_runtime_modules.py
tests/test_scheduler_coverage.py
tests/test_scheduler_engine.py
tests/test_scientific_linter.py
tests/test_scientific_validity.py
tests/test_search_v2_contract.py
tests/test_smoke_schedules_api.py
tests/test_source_chunking.py
tests/test_sources.py
tests/test_sources_clients.py
tests/test_sources_coverage.py
tests/test_sources_massive.py
tests/test_sources_mega.py
tests/test_sources_ultra.py
tests/test_spec_lint.py
tests/test_stages_detailed.py
tests/test_stages_functional.py
tests/test_submission_coverage.py
tests/test_submission_format.py
tests/test_submission_giga.py
tests/test_submission_massive.py
tests/test_submission_mega.py
tests/test_submission_ultra.py
tests/test_sudo_approval.py
tests/test_summarizers.py
tests/test_sync_coverage.py
tests/test_sync_handlers.py
tests/test_sync_massive.py
tests/test_sync_mega.py
tests/test_sync_progress.py
tests/test_sync_storage.py
tests/test_sync_ultra.py
tests/test_table_extractor.py
tests/test_task_model.py
tests/test_td002_active_learning_cli_query_cov.py
tests/test_td002_active_learning_engine_cov.py
tests/test_td002_atomic_pii_trend_cov.py
tests/test_td002_connectors_cov.py
tests/test_td002_evidence_output_cov.py
tests/test_td002_ingestion_search_multimodal_ops_cov.py
tests/test_td002_integrations_cov.py
tests/test_td002_remaining_low_cov_cov.py
tests/test_td002_scheduler_lyra_health_cov.py
tests/test_td002_search_storage_api_cov.py
tests/test_td002_skills_engine_cov.py
tests/test_telemetry_analyze.py
tests/test_telemetry_contract_v2.py
tests/test_telemetry_coverage.py
tests/test_telemetry_logger.py
tests/test_telemetry_redact.py
tests/test_telemetry_required.py
tests/test_telemetry_smoke.py
tests/test_telemetry_summarize.py
tests/test_term_normalizer.py
tests/test_terminal_security.py
tests/test_thinking_engines.py
tests/test_time_schema.py
tests/test_timeline.py
tests/test_trace.py
tests/test_trace_context.py
tests/test_trace_coverage.py
tests/test_trend_watcher.py
tests/test_trick_sets.py
tests/test_uncertainty.py
tests/test_user_open_files.py
tests/test_utils_performance.py
tests/test_v41_sprint1.py
tests/test_v42_sprint23.py
tests/test_v4_integration.py
tests/test_v4_roads.py
tests/test_validate_bundle.py
tests/test_validation.py
tests/test_validation_coverage.py
tests/test_vector_index.py
tests/test_visualization.py
tests/test_visualization_advanced.py
tests/test_web_fetcher.py
tests/test_web_fetcher_coverage.py
tests/test_weekly_pack.py
tests/test_workflow.py
tests/test_workflow_automation.py
tests/test_workflow_coverage.py
tests/test_workflow_massive.py
tests/test_workflow_mega.py
tests/test_workflow_runner.py
tests/test_workflow_tuner.py
tests/test_workflow_ultra.py
tests/test_workflows_presets.py
tests/test_writing_coverage.py
tests/test_writing_module.py
tests/test_zotero_integration_v2.py