LICENSE
README.md
pyproject.toml
e2er.egg-info/PKG-INFO
e2er.egg-info/SOURCES.txt
e2er.egg-info/dependency_links.txt
e2er.egg-info/entry_points.txt
e2er.egg-info/requires.txt
e2er.egg-info/top_level.txt
pipelines/__init__.py
pipelines/descriptive-study.toml
pipelines/empirical-preregistered.toml
pipelines/empirical.toml
pipelines/event-study-finance.toml
pipelines/field-map.toml
pipelines/policy-evaluation.toml
pipelines/replication.toml
pipelines/spatial-analysis.toml
pipelines/systematic-review.toml
pipelines/text-analysis.toml
pipelines/time-series-forecasting.toml
skills/__init__.py
skills/files/__init__.py
skills/files/base/__init__.py
skills/files/base/economist.md
skills/files/base/researcher.md
skills/files/causal-inference/__init__.py
skills/files/causal-inference/identification-spec-schema.md
skills/files/causal-inference/judge-designs.md
skills/files/causal-inference/natural-experiments.md
skills/files/causal-inference/sensitivity.md
skills/files/causal-inference/shift-share.md
skills/files/causal-inference/weak-instruments.md
skills/files/data/__init__.py
skills/files/data/allium-cli.md
skills/files/data/allium-developer-api.md
skills/files/data/blockchain.md
skills/files/data/byod.md
skills/files/data/cleaning.md
skills/files/data/crypto-defi.md
skills/files/data/data-tables.md
skills/files/data/descriptive-results-schema.md
skills/files/data/eurostat.md
skills/files/data/exoplanets.md
skills/files/data/figure-spec.md
skills/files/data/fred.md
skills/files/data/gaia.md
skills/files/data/gisco.md
skills/files/data/github.md
skills/files/data/gmd.md
skills/files/data/gutenberg.md
skills/files/data/metaanalysis-results-schema.md
skills/files/data/nasa_power.md
skills/files/data/naturalearth.md
skills/files/data/noaa.md
skills/files/data/owid.md
skills/files/data/query-data.md
skills/files/data/spatial-results-schema.md
skills/files/data/spatial-statistics.md
skills/files/data/summary-statistics-schema.md
skills/files/data/table-spec.md
skills/files/data/text-results-schema.md
skills/files/data/timeseries-results-schema.md
skills/files/data/usgs.md
skills/files/data/visualization.md
skills/files/data/who_gho.md
skills/files/data/worldbank.md
skills/files/data/yfinance.md
skills/files/econometrics/__init__.py
skills/files/econometrics/did-practice.md
skills/files/econometrics/did.md
skills/files/econometrics/estimation-results-schema.md
skills/files/econometrics/event-study.md
skills/files/econometrics/iv-estimation.md
skills/files/econometrics/panel-data.md
skills/files/econometrics/rdd.md
skills/files/econometrics/time-series.md
skills/files/latex/__init__.py
skills/files/latex/bibtex.md
skills/files/latex/econ-model.md
skills/files/latex/tables.md
skills/files/math/__init__.py
skills/files/math/optimization-verification.md
skills/files/math/proof-strategies.md
skills/files/methods/__init__.py
skills/files/methods/descriptive-analysis.md
skills/files/methods/meta-analysis.md
skills/files/methods/text-analysis.md
skills/files/methods/time-series-forecasting.md
skills/files/modeling/__init__.py
skills/files/modeling/asset-pricing.md
skills/files/modeling/game-theory.md
skills/files/modeling/market-microstructure.md
skills/files/reasoning/__init__.py
skills/files/reasoning/anti-slop.md
skills/files/reasoning/argument-audit.md
skills/files/reasoning/creative-ideation.md
skills/files/reasoning/identification.md
skills/files/reasoning/novelty.md
skills/files/replication/__init__.py
skills/files/replication/replication-plan.md
skills/files/replication/reproduction-protocol.md
skills/files/replication/reproduction-report.md
skills/files/review/__init__.py
skills/files/review/consistency-check.md
skills/files/review/constructive-feedback.md
skills/files/review/data-quality.md
skills/files/review/domain-plausibility.md
skills/files/review/methods-review.md
skills/files/review/referee-simulation.md
skills/files/review/reference-check.md
skills/files/review/technical-review.md
skills/files/review/writing-quality.md
skills/files/synthesis/__init__.py
skills/files/synthesis/context-builder.md
skills/files/synthesis/deliverables.md
skills/files/synthesis/main-path-analysis.md
skills/files/synthesis/replication-package.md
skills/files/writing/__init__.py
skills/files/writing/abstract.md
skills/files/writing/cite-numbers-by-source.md
skills/files/writing/discussion.md
skills/files/writing/paper-structure.md
skills/files/writing/personal-style.md
skills/files/writing/revision.md
skills/files/writing/scoped-revision.md
sql/001_papers.sql
sql/002_llm_usage.sql
sql/003_data_queries.sql
sql/004_literature.sql
sql/005_contributions.sql
sql/006_events.sql
sql/007_papers_error.sql
sql/008_papers_max_cost.sql
sql/009_papers_methodology.sql
sql/010_papers_model.sql
sql/011_papers_backend.sql
sql/012_papers_governance.sql
sql/013_papers_review_stages.sql
sql/014_papers_pipeline.sql
sql/015_papers_study_versions.sql
sql/016_papers_run_owner.sql
sql/__init__.py
sql/sqlite/__init__.py
sql/sqlite/schema.sql
src/__init__.py
src/__main__.py
src/cli_corpus.py
src/cli_export.py
src/cli_init.py
src/cli_install_skills.py
src/cli_package.py
src/cli_platform.py
src/cli_publish.py
src/cli_reproduce.py
src/cli_review.py
src/cli_rq.py
src/cli_run.py
src/cli_run_matrix.py
src/cli_skills.py
src/cli_status.py
src/cli_studies.py
src/cli_submit.py
src/cli_verify.py
src/config.py
src/doctor.py
src/home.py
src/logging_config.py
src/paths.py
src/wrappers.py
src/api/__init__.py
src/api/app.py
src/api/finish.py
src/api/inputs.py
src/api/local_session.py
src/api/setup.py
src/api/studies.py
src/api/static/e2er.js
src/api/static/htmx.min.js
src/api/static/style.css
src/api/templates/_error_fragment.html
src/api/templates/_inputs_panel.html
src/api/templates/_library_adding.html
src/api/templates/_live.html
src/api/templates/_paper_choices.html
src/api/templates/_preflight_banner.html
src/api/templates/_preflight_checks.html
src/api/templates/_setup_checks.html
src/api/templates/base.html
src/api/templates/error.html
src/api/templates/finish.html
src/api/templates/index.html
src/api/templates/library.html
src/api/templates/new.html
src/api/templates/paper.html
src/api/templates/preflight.html
src/api/templates/review.html
src/api/templates/setup.html
src/api/templates/skills.html
src/api/templates/study.html
src/api/templates/workflow.html
src/core/__init__.py
src/core/availability.py
src/core/bibliography.py
src/core/data_terms.py
src/core/demonstration.py
src/core/derived_data.py
src/core/dossier.py
src/core/external_verify.py
src/core/governance.py
src/core/labels.py
src/core/method_sources.py
src/core/platform_client.py
src/core/reproduce.py
src/core/reproduce_netguard.py
src/core/research_object.py
src/core/run_identity.py
src/core/run_outcome.py
src/core/run_owner.py
src/core/script_log.py
src/core/secret_scan.py
src/core/study_inputs.py
src/core/titles.py
src/core/writing_check.py
src/core/zenodo.py
src/core/compare/__init__.py
src/core/experiment/__init__.py
src/core/export/__init__.py
src/core/export/bundle_files.py
src/core/export/current.py
src/core/export/package.py
src/core/export/provenance.py
src/core/export/report.py
src/core/export/reproduce_recipe.py
src/core/export/structured.py
src/core/pipeline/__init__.py
src/core/pipeline/checks_common.py
src/core/pipeline/components.py
src/core/pipeline/data_quality.py
src/core/pipeline/did_checks.py
src/core/pipeline/event_window.py
src/core/pipeline/fieldmap_checks.py
src/core/pipeline/forecast_checks.py
src/core/pipeline/meta_checks.py
src/core/pipeline/preregistration.py
src/core/pipeline/replication.py
src/core/pipeline/reproduction.py
src/core/pipeline/reproduction_md.py
src/core/pipeline/researcher.py
src/core/pipeline/result_kinds.py
src/core/pipeline/sandbox.py
src/core/pipeline/spatial_checks.py
src/core/pipeline/spec.py
src/core/pipeline/state.py
src/core/pipeline/statistics.py
src/core/pipeline/text_checks.py
src/core/pipeline/verify_citations.py
src/core/pipeline/verify_numbers.py
src/core/renderer/__init__.py
src/core/renderer/check_tables.py
src/core/renderer/compiler.py
src/core/renderer/complete.py
src/core/renderer/figures.py
src/core/renderer/maps.py
src/core/renderer/meta_figures.py
src/core/renderer/prose.py
src/core/renderer/tables.py
src/core/renderer/templates.py
src/core/specialists/__init__.py
src/core/specialists/base.py
src/core/specialists/contract_check.py
src/core/specialists/contracts.py
src/core/specialists/data_sources.py
src/core/specialists/dispatcher.py
src/core/specialists/post_execution.py
src/core/specialists/registry.py
src/core/specialists/standalone_check.py
src/core/strategist/__init__.py
src/core/strategist/actions.py
src/core/strategist/context.py
src/core/strategist/engine.py
src/core/strategist/findings.py
src/core/strategist/patch_merger.py
src/core/strategist/review_aggregator.py
src/core/strategist/runner.py
src/core/strategist/state.py
src/db/__init__.py
src/db/client.py
src/db/events.py
src/db/migrate.py
src/db/paper_data_db.py
src/db/studies.py
src/modules/__init__.py
src/modules/local_corpus.py
src/modules/security.py
src/modules/skills_catalogue.py
src/modules/data/__init__.py
src/modules/data/allium.py
src/modules/data/allium_developer.py
src/modules/data/audit.py
src/modules/data/byod_import.py
src/modules/data/cli.py
src/modules/data/dictionary.py
src/modules/data/discovery_tools.py
src/modules/data/fred_provider.py
src/modules/data/gmd_provider.py
src/modules/data/guardrails.py
src/modules/data/load_record.py
src/modules/data/normalize.py
src/modules/data/providers.py
src/modules/data/query_tools.py
src/modules/data/registry.py
src/modules/data/tools.py
src/modules/data/yfinance_provider.py
src/modules/data/zenodo.py
src/modules/data/sources/__init__.py
src/modules/data/sources/adapters.py
src/modules/data/sources/base.py
src/modules/data/sources/docs.py
src/modules/data/sources/eurostat.py
src/modules/data/sources/exoplanets.py
src/modules/data/sources/fred.py
src/modules/data/sources/gaia.py
src/modules/data/sources/gisco.py
src/modules/data/sources/github.py
src/modules/data/sources/gmd.py
src/modules/data/sources/gutenberg.py
src/modules/data/sources/http.py
src/modules/data/sources/legacy.py
src/modules/data/sources/nasa_power.py
src/modules/data/sources/naturalearth.py
src/modules/data/sources/noaa.py
src/modules/data/sources/owid.py
src/modules/data/sources/runtime.py
src/modules/data/sources/usgs.py
src/modules/data/sources/who_gho.py
src/modules/data/sources/worldbank.py
src/modules/data/sources/yfinance.py
src/modules/fetch/__init__.py
src/modules/fetch/http.py
src/modules/fieldmap/__init__.py
src/modules/fieldmap/cli.py
src/modules/fieldmap/credit.py
src/modules/fieldmap/exports.py
src/modules/fieldmap/figure.py
src/modules/fieldmap/mainpath.py
src/modules/fieldmap/network.py
src/modules/fieldmap/openalex.py
src/modules/fieldmap/robustness.py
src/modules/fieldmap/workflow.py
src/modules/github/__init__.py
src/modules/github/client.py
src/modules/github/push.py
src/modules/github/templates.py
src/modules/literature/__init__.py
src/modules/literature/arxiv.py
src/modules/literature/bibtex.py
src/modules/literature/cli.py
src/modules/literature/corpus.py
src/modules/literature/corpus_context.py
src/modules/literature/crossref.py
src/modules/literature/discovery.py
src/modules/literature/extract.py
src/modules/literature/fulltext.py
src/modules/literature/ingest.py
src/modules/literature/local_pdf_meta.py
src/modules/literature/local_zotero.py
src/modules/literature/models.py
src/modules/literature/oa_resolvers.py
src/modules/literature/openalex.py
src/modules/literature/pdf.py
src/modules/literature/providers.py
src/modules/literature/registry.py
src/modules/literature/review.py
src/modules/literature/semantic_scholar.py
src/modules/literature/storage.py
src/modules/literature/tools.py
src/modules/literature/unpaywall.py
src/modules/literature/zotero.py
src/modules/llm/__init__.py
src/modules/llm/anthropic.py
src/modules/llm/base.py
src/modules/llm/claude_code.py
src/modules/llm/cli_support.py
src/modules/llm/codex.py
src/modules/llm/gemini.py
src/modules/llm/history.py
src/modules/llm/openrouter.py
src/modules/llm/openrouter_models.py
src/modules/llm/plan_limit.py
src/modules/llm/registry.py
src/modules/llm/tools.py
src/modules/metaanalysis/__init__.py
src/modules/metaanalysis/credit.py
src/modules/metaanalysis/extraction.py
src/modules/metaanalysis/fulltext.py
src/modules/metaanalysis/protocol.py
src/modules/metaanalysis/screening.py
src/modules/metaanalysis/script.py
src/modules/metaanalysis/search.py
src/modules/metaanalysis/stats.py
src/modules/metaanalysis/workflow.py
src/modules/tracking/__init__.py
src/modules/tracking/costs.py
src/modules/tracking/usage.py
src/skills/__init__.py
src/skills/loader.py
tests/test_allium_cli.py
tests/test_api.py
tests/test_audit.py
tests/test_backend_override.py
tests/test_background_paper_creation.py
tests/test_billing_limit_pause.py
tests/test_brand.py
tests/test_browser_setup.py
tests/test_byod_parquet_xlsx.py
tests/test_byod_sampling.py
tests/test_byod_sqlite_storage.py
tests/test_call_timeout_pause.py
tests/test_canonical_json.py
tests/test_checks_coverage.py
tests/test_claude_code_backend.py
tests/test_cli_export_lookup.py
tests/test_cli_init.py
tests/test_cli_naming.py
tests/test_cli_run_input.py
tests/test_cli_run_template.py
tests/test_cli_run_title.py
tests/test_cli_status.py
tests/test_cli_submit.py
tests/test_cli_verify.py
tests/test_compare.py
tests/test_compiler_engine.py
tests/test_contract_check.py
tests/test_contract_pause.py
tests/test_corpus.py
tests/test_corpus_cli.py
tests/test_corpus_context.py
tests/test_costs.py
tests/test_dashboard_clean.py
tests/test_dashboard_parity.py
tests/test_dashboard_vocabulary.py
tests/test_data_cli_prog.py
tests/test_data_normalize.py
tests/test_data_sources.py
tests/test_data_values_and_keys.py
tests/test_demonstration.py
tests/test_derived_data.py
tests/test_descriptive_timeseries_checks.py
tests/test_did_spatial_checks.py
tests/test_doctor.py
tests/test_dossier_run.py
tests/test_draft_if_left_out.py
tests/test_estimation_before_freeze.py
tests/test_estimation_gate.py
tests/test_event_study_template.py
tests/test_experiment.py
tests/test_experiment_metric.py
tests/test_export_integrity.py
tests/test_export_report.py
tests/test_external_verify.py
tests/test_extract_review.py
tests/test_failure_view.py
tests/test_fieldmap.py
tests/test_fieldmap_figure.py
tests/test_fieldmap_template.py
tests/test_figure_renderer.py
tests/test_final_researcher_step.py
tests/test_finish_folders.py
tests/test_first_run_guardrail.py
tests/test_github.py
tests/test_gitignore_secrets.py
tests/test_governance_contracts.py
tests/test_governance_regime.py
tests/test_guardrails.py
tests/test_haiku_stale_tables_and_citations.py
tests/test_hypothesis_labels.py
tests/test_identification_spec_contract.py
tests/test_iterative_mode.py
tests/test_jel_only_in_economics.py
tests/test_latex_template.py
tests/test_library_page.py
tests/test_literature_acquisition.py
tests/test_literature_cli.py
tests/test_literature_queries.py
tests/test_live_progress.py
tests/test_local_corpus_extensions.py
tests/test_local_data_dir.py
tests/test_local_pdf_meta.py
tests/test_metaanalysis.py
tests/test_methodology.py
tests/test_misc_fixes.py
tests/test_neutral_core_replay.py
tests/test_number_check.py
tests/test_number_check_untraced.py
tests/test_oa_resolvers.py
tests/test_openalex_budget.py
tests/test_openrouter_history.py
tests/test_openrouter_pricing.py
tests/test_package.py
tests/test_page_furniture.py
tests/test_paper_page_groups.py
tests/test_patch_coverage.py
tests/test_patch_phrases.py
tests/test_pipeline.py
tests/test_pipeline_choice.py
tests/test_pipeline_figure.py
tests/test_pipeline_resilience.py
tests/test_pipeline_robustness.py
tests/test_pipeline_sequence.py
tests/test_pipeline_spec.py
tests/test_plan_limit_pause.py
tests/test_platform_cli.py
tests/test_policy_evaluation_replay.py
tests/test_post_execution.py
tests/test_predraft_and_method_sources.py
tests/test_preflight_speed.py
tests/test_prose_numbers_2026_10_15.py
tests/test_provenance.py
tests/test_publish_access.py
tests/test_publish_data_terms.py
tests/test_publish_gaia_terms.py
tests/test_publish_integrity.py
tests/test_publish_local_paths.py
tests/test_publish_paper_and_nudges.py
tests/test_publish_site_schema.py
tests/test_publish_template.py
tests/test_publish_yahoo_terms.py
tests/test_query_data_cli.py
tests/test_query_data_steering.py
tests/test_readme_claims.py
tests/test_recipe_optional_deps.py
tests/test_records_tables.py
tests/test_references_bib.py
tests/test_regressions.py
tests/test_replay_level.py
tests/test_replication_template.py
tests/test_reproduce.py
tests/test_reproduce_recipe.py
tests/test_reproduce_restricted_data.py
tests/test_reproduce_standalone.py
tests/test_reproduction_md.py
tests/test_rerun.py
tests/test_research_object.py
tests/test_researcher_step.py
tests/test_restricted_reasons.py
tests/test_result_kinds.py
tests/test_results_from_code.py
tests/test_review_2026_10_06_fixes.py
tests/test_review_aggregator.py
tests/test_review_and_rerun_options.py
tests/test_review_checkpoints.py
tests/test_review_recommendation_parsing.py
tests/test_review_schema.py
tests/test_reviewer_output_contract.py
tests/test_revision_applies_something.py
tests/test_rq.py
tests/test_run_identity.py
tests/test_run_matrix.py
tests/test_run_outcome.py
tests/test_run_owner.py
tests/test_run_status_2026_10_15.py
tests/test_runner_stops_review_2026_10_06.py
tests/test_save_to_protection.py
tests/test_security_review_fixes.py
tests/test_send_back_at_a_check.py
tests/test_send_back_reruns_its_checks.py
tests/test_sendable_ran.py
tests/test_serve_and_orphans.py
tests/test_server_autostart_token.py
tests/test_showcase_bundle.py
tests/test_skills_catalogue.py
tests/test_skills_page.py
tests/test_spatial_analysis_replay.py
tests/test_specialist_manifest.py
tests/test_specialist_run_loop.py
tests/test_structured_export.py
tests/test_structured_review.py
tests/test_study_inputs.py
tests/test_study_versions.py
tests/test_systematic_review_replay.py
tests/test_table_renderer.py
tests/test_table_spec_checker.py
tests/test_text_analysis_replay.py
tests/test_text_checks.py
tests/test_timeseries_template_replay.py
tests/test_tool_loop_stress.py
tests/test_verify_citations.py
tests/test_verify_integrity.py
tests/test_workflow_page.py
tests/test_wrappers_installed.py
tests/test_writing_check.py