requirements.txt

accelerate==1.11.0
aiodns 
aiohappyeyeballs 
aiohttp 
aiosignal 
annotated-types 
anyio 
asttokens==3.0.0
attrs 
Authlib 
biopython==1.85
bitsandbytes==0.48.2
blinker 
Bottleneck 
brotlicffi 
certifi 
cffi 
charset-normalizer 
click 
colorama==0.4.6
coloredlogs==15.0.1
comm==0.2.3
cryptography 
cssselect==1.3.0
cyclopts 
datasets 
debugpy==1.8.17
decorator==5.2.1
dill 
distro 
dnspython==2.8.0
docopt==0.6.2
docstring_parser 
docutils 
email-validator==2.3.0
eutils==0.6.0
exceptiongroup 
executing==2.2.1
faiss-cpu==1.12.0
fastapi 
fastmcp==2.12.4
filelock 
Flask 
frozenlist 
fsspec 
gevent==25.9.1
gmpy2 
greenlet==3.2.4
h11 
habanero==2.3.0
hf-xet 
httpcore 
httpx 
httpx-sse 
huggingface_hub 
humanfriendly==10.0
idna 
importlib_metadata 
ipykernel==7.0.0
ipython==9.6.0
ipython_pygments_lexers==1.1.1
isodate==0.7.2
itsdangerous 
jedi==0.19.2
Jinja2 
jiter 
joblib 
jsonschema 
jsonschema-path==0.3.4
jsonschema-specifications 
jupyter_client==8.6.3
jupyter_core==5.8.1
lazy-object-proxy==1.12.0
Levenshtein==0.27.1
lxml==6.0.2
lxml_html_clean==0.4.3
markdown-it-py 
MarkupSafe 
matplotlib-inline==0.1.7
mcp==1.17.0
mcp-simple-pubmed==0.1.13
mdurl 
metapub==0.6.4
mkl-service==2.4.0
mkl_fft 
mkl_random 
more-itertools==10.8.0
mpmath 
multidict 
multiprocess 
nest-asyncio==1.6.0
networkx 
numexpr 
numpy 
openai 
openapi-core==0.19.5
openapi-pydantic 
openapi-schema-validator==0.6.3
openapi-spec-validator==0.7.2
opentelemetry-api 
packaging==25.0
pandas 
parse==1.20.2
parso==0.8.5
pathable==0.4.4
pillow 
platformdirs==4.5.0
prompt_toolkit==3.0.52
propcache 
protobuf 
psutil==7.1.0
pure_eval==0.2.3
pyarrow 
pycares 
pycparser 
pydantic 
pydantic-settings 
pydantic_core 
Pygments==2.19.2
pyperclip 
pyreadline3==3.5.4
PySocks 
python-dateutil==2.9.0.post0
python-dotenv 
python-Levenshtein==0.27.1
python-multipart 
pytz 
pywin32==311
PyYAML 
pyzmq==27.1.0
RapidFuzz==3.14.1
referencing 
regex 
requests 
rfc3339-validator==0.1.4
rich 
rich-rst 
rpds-py 
safetensors 
scikit-learn 
scipy 
sentence-transformers 
setuptools==80.9.0
six==1.17.0
sniffio 
sse-starlette 
stack-data==0.6.3
starlette 
sympy 
tabulate==0.9.0
threadpoolctl 
tokenizers 
torch==2.6.0
tornado==6.5.2
tqdm 
traitlets==5.14.3
transformers 
typing-inspection 
typing_extensions 
tzdata 
Unidecode==1.4.0
urllib3 
uvicorn 
wcwidth==0.2.14
websocket-client==1.9.0
Werkzeug==3.1.1
wheel==0.45.1
win_inet_pton 
winloop 
xxhash 
yarl 
zipp 
zope.event==6.0
zope.interface==8.0.1