requests>=2.32.0
numpy>=2.2.0
graphql-core>=3.2.0
fastapi>=0.116.0
uvicorn>=0.35.0
pydantic>=2.11.0
epam.indigo>=1.34.0
networkx>=3.4.0
openai>=1.107.0
pyyaml>=6.0.0
google-genai>=1.36.0
google-generativeai>=0.7.2
mcp[cli]>=1.9.3
fastmcp>=2.12.0
xmltodict>=1.0.0
lxml>=6.0.0
huggingface_hub>=0.34.0
rcsb-api>=1.4.0
sentence-transformers>=5.1.0
fitz>=0.0.1.dev2
pandas>=2.2.3
admet-ai>=1.2.0
setuptools>=70.0.0
pdfplumber>=0.11.0
playwright>=1.55.0
faiss-cpu>=1.12.0
flask>=2.0.0
chemprop==1.6.1
aiohttp
beautifulsoup4>=4.12.0
markitdown[all]>=0.1.0
psutil>=5.9.0

[all]
tooluniverse[dev,docs,graph,visualization]

[dev]
pytest>=7.0
pytest-cov>=4.0
pytest-timeout>=2.3.1
pytest-mock>=3.14.0
pytest-asyncio>=0.21.0
requests-mock>=1.12.1
black>=22.0
flake8>=4.0
pre-commit>=2.0
pytest-xdist>=3.0
pytest-html>=3.0

[docs]
sphinx>=4.0
furo>=2024.8.6
pydata-sphinx-theme>=0.15.0
sphinx-rtd-theme>=1.0
shibuya>=0.10.0
myst-parser>=0.18
linkify-it-py>=2.0.0
sphinx-autobuild>=2021.3.14
sphinx-copybutton>=0.5.0
sphinx-tabs>=3.2.0
sphinx-design>=0.3.0
sphinx-notfound-page>=0.8
sphinx-autodoc-typehints>=1.12.0

[embedding]
sentence-transformers>=5.1.0
faiss-cpu>=1.12.0
huggingface_hub>=0.34.0

[graph]
flask>=2.0.0
matplotlib>=3.5.0
plotly>=5.0.0
scipy>=1.7.0
pydot>=1.4.0
pygraphviz>=1.7
jinja2>=3.0.0
werkzeug>=2.0.0

[visualization]
py3Dmol>=2.0.0
rdkit>=2023.9.1
plotly>=5.18.0
kaleido>=0.2.1
scipy>=1.7.0
matplotlib>=3.5.0
networkx>=3.4.0
