LICENSE
LICENSE-COMMERCIAL.md
MANIFEST.in
README.md
pyproject.toml
docs/DATASETS_2016.md
docs/GETTING_STARTED.md
docs/HACKATHON_TASK_BOARD.md
docs/MANUAL_VERIFICATION_CHECKLIST.md
docs/PAPERS_AND_TDRS.md
docs/PIPELINE.md
docs/RAG_VECTOR_DB.md
docs/REFERENCES.md
docs/RELEASE.md
docs/RUNBOOK.md
docs/TROUBLESHOOTING.md
docs/TUTORIAL.md
docs/harness.md
docs/examples/README.md
rag/index_documents.py
rag_ai_scientist/__init__.py
rag_ai_scientist/cli.py
rag_ai_scientist/demo.py
rag_ai_scientist/handoff.py
rag_ai_scientist/handoff_bundle.py
rag_ai_scientist/mcp_server.py
rag_ai_scientist/project_paths.py
rag_ai_scientist/ras_cli.py
rag_ai_scientist.egg-info/PKG-INFO
rag_ai_scientist.egg-info/SOURCES.txt
rag_ai_scientist.egg-info/dependency_links.txt
rag_ai_scientist.egg-info/entry_points.txt
rag_ai_scientist.egg-info/requires.txt
rag_ai_scientist.egg-info/top_level.txt
rag_ai_scientist/core/__init__.py
rag_ai_scientist/core/retrieval.py
rag_ai_scientist/core/text.py
rag_ai_scientist/harness/__init__.py
rag_ai_scientist/harness/base.py
rag_ai_scientist/harness/config.py
rag_ai_scientist/harness/gates.py
rag_ai_scientist/harness/loop.py
rag_ai_scientist/harness/plan.py
rag_ai_scientist/harness/planner.py
rag_ai_scientist/harness/registry.py
rag_ai_scientist/harness/report.py
rag_ai_scientist/harness/rundir.py
rag_ai_scientist/harness/runner.py
rag_ai_scientist/harness/skills.py
rag_ai_scientist/harness/steps.py
rag_ai_scientist/harness/profiles/__init__.py
rag_ai_scientist/overleaf/__init__.py
rag_ai_scientist/overleaf/client.py
rag_ai_scientist/overleaf/config.py
rag_ai_scientist/overleaf/node/README.md
rag_ai_scientist/overleaf/node/overleaf-git-client.js
rag_ai_scientist/overleaf/node/overleaf-mcp-server.js
rag_ai_scientist/overleaf/node/package.json
rag_ai_scientist/skills/_template/SKILL.md
rag_ai_scientist/skills/an-pipeline-runner/SKILL.md
rag_ai_scientist/skills/an-pipeline-runner/bdt.md
rag_ai_scientist/skills/an-pipeline-runner/br.md
rag_ai_scientist/skills/an-pipeline-runner/gpid.md
rag_ai_scientist/skills/an-pipeline-runner/massfit.md
rag_ai_scientist/skills/an-pipeline-runner/mc-corrections.md
rag_ai_scientist/skills/an-pipeline-runner/preselection.md
rag_ai_scientist/skills/an-pipeline-runner/setup.md
rag_ai_scientist/skills/an-pipeline-runner/validate.md
rag_ai_scientist/skills/an-validation/SKILL.md
rag_ai_scientist/skills/an-validation/generate-report.md
rag_ai_scientist/skills/an-validation/publish.md
rag_ai_scientist/skills/an-validation/report-style.md
rag_ai_scientist/skills/ap-starterkit-execution/SKILL.md
rag_ai_scientist/skills/cms-higgs-opendata/SKILL.md
rag_ai_scientist/skills/harness-tutorial/SKILL.md
rag_ai_scientist/skills/overleaf-paper-sync/SKILL.md
rag_ai_scientist/skills/rag-setup/SKILL.md
scripts/demo.py
tests/test_create_handoff.py
tests/test_harness_loop.py
tests/test_project_paths.py
tests/test_tutorial_and_demo.py