diff --git a/server/requirements.txt b/server/requirements.txt index 64b1895d..6226eca5 100644 --- a/server/requirements.txt +++ b/server/requirements.txt @@ -1,25 +1,171 @@ -# NOTE: If you update 'anndata' min version, also update the 'anndata_version' -# matrix value in .github/workflows/compatibility_tests.yml -anndata>=0.7.6 # we need to_memory(), added in 0.7.6 -boto3>=1.12.18 -click>=7.1.2 -Flask>=1.0.2 -Flask-Compress>=1.4.0 -Flask-Cors>=3.0.9 # CVE-2020-25032 -Flask-RESTful>=0.3.6 -flask-server-timing>=0.1.2 -flask-talisman>=0.7.0 -flatbuffers>=1.11.0,<2.0.0 # cellxgene is not compatible with 2.0.0. Requires migration -flatten-dict>=0.2.0 -fsspec>=0.4.4,<0.8.0 -gunicorn>=20.0.4 -h5py>=3.0.0 -matplotlib>=3.5.0 -numba>=0.51.2 -numpy>=1.17.5 -packaging>=20.0 -pandas>=1.0,!=1.1 # pandas 1.1 breaks tests, https://github.com/pandas-dev/pandas/issues/35446 -PyYAML>=5.4 # CVE-2020-14343 -scipy>=1.4 -requests>=2.22.0 +alembic==1.4.2 +aniso8601==8.0.0 +anndata==0.8.0 +appdirs==1.4.4 +astroid==2.4.2 +attrs==19.3.0 +Authlib==0.14.3 +autopep8==1.5.4 +aws-sam-translator==1.25.0 +aws-xray-sdk==2.6.0 +bitarray==2.7.3 +black==23.12.1 +bleach==3.1.5 +boto==2.49.0 +boto3==1.26.94 +botocore==1.29.165 +Brotli==1.0.7 +bump2version==1.0.0 +bumpversion==0.6.0 +-e git+git@github.com:chanzuckerberg/cellxgene.git@7d61f47a31a661f49cef6c7d2356228d0aeb044c#egg=cellxgene +certifi==2020.4.5.1 +cffi==1.14.0 +cfn-lint==0.34.0 +chalice==1.12.0 +chardet==3.0.4 +charset-normalizer==3.3.2 +click==8.1.3 +clickclick==1.2.2 +codecov==2.1.3 +connexion==2.7.0 +contourpy==1.1.1 +coverage==7.4.0 +cryptography==2.9.2 +cycler==0.10.0 +decorator==4.4.2 +docker==4.2.2 +docutils==0.15.2 +ecdsa==0.18.0 +enum-compat==0.0.3 +envyaml==1.10.211231 +fastobo==0.7.2 +flake8==7.0.0 +flake8-black==0.2.0 +Flask==2.2.3 +Flask-Caching==1.8.0 +Flask-Compress==1.13 +Flask-Cors==3.0.10 +Flask-RESTful==0.3.9 +flask-server-timing==0.1.2 +flask-talisman==1.0.0 +flatbuffers==1.12 +flatten-dict==0.4.2 +fonttools==4.47.2 +fsspec==0.7.4 +furl==2.1.0 +future==0.18.2 +get-version==2.1 +gevent==23.9.1 +greenlet==3.0.3 +gunicorn==20.0.4 +h5py==3.10.0 +idna==2.8 +importlib-metadata==7.0.1 +importlib-resources==6.1.1 +inflection==0.5.0 +isort==4.3.21 +itsdangerous==2.1.2 +Jinja2==3.1.3 +jmespath==0.10.0 +joblib==0.16.0 +jsondiff==1.1.2 +jsonpatch==1.26 +jsonpickle==1.4.1 +jsonpointer==2.0 +jsonschema==3.2.0 +junit-xml==1.9 +keyring==21.2.1 +kiwisolver==1.2.0 +lazy-object-proxy==1.4.3 +legacy-api-wrap==1.2 +llvmlite==0.39.1 +Mako==1.1.3 +MarkupSafe==2.1.4 +matplotlib==3.7.4 +mccabe==0.7.0 +mock==4.0.2 +more-itertools==8.3.0 +moto==1.3.14 +mypy==1.8.0 +mypy-extensions==0.4.3 +natsort==7.0.1 +networkx==2.4 +numba==0.56.4 +numexpr==2.7.1 +numpy==1.23.5 +openapi-spec-validator==0.2.8 +orderedmultidict==1.0.1 +Owlready2==0.24 +packaging==20.4 +pandas==1.5.3 +parameterized==0.7.4 +pathlib2==2.3.5 +pathspec==0.12.1 +patsy==0.5.1 +Pillow==7.2.0 +pkginfo==1.5.0.1 +platformdirs==4.1.0 +pluggy==0.13.1 +psycopg2-binary==2.8.5 +py==1.8.1 +pyasn1==0.4.8 +pycodestyle==2.11.1 +pycparser==2.20 +pydantic==1.10.6 +pyflakes==3.2.0 +Pygments==2.6.1 +pylint==2.5.3 +PyMySQL==0.9.3 +pyparsing==2.4.7 +pyrsistent==0.16.0 +pytest==5.4.2 +pytest-subtests==0.11.0 +python-dateutil==2.8.1 +python-editor==1.0.4 +python-jose==3.3.0 +python-json-logger==2.0.7 +pytz==2020.1 +PyYAML==6.0.1 +readme-renderer==26.0 +regex==2020.5.14 +requests==2.28.2 +requests-toolbelt==0.9.1 +responses==0.10.15 +rsa==4.9 s3fs==0.4.2 +s3transfer==0.6.2 +scanpy==1.4.6 +scikit-learn==0.23.2 +scipy==1.10.1 +seaborn==0.10.1 +setuptools-scm==4.1.2 +sinfo==0.3.1 +six==1.15.0 +SQLAlchemy==1.3.19 +sshpubkeys==3.1.0 +statsmodels==0.12.0rc0 +stdlib-list==0.7.0 +swagger-ui-bundle==0.0.6 +tables==3.6.1 +threadpoolctl==2.1.0 +tiledb==0.21.4 +toml==0.10.1 +tomli==2.0.1 +tqdm==4.46.0 +twine==3.1.1 +typed-ast==1.4.1 +types-PyYAML==6.0.12.12 +types-requests==2.31.0.20240106 +types-setuptools==69.0.0.20240115 +typing-extensions==3.7.4.3 +umap-learn==0.4.6 +urllib3==1.25.9 +wcwidth==0.2.2 +webencodings==0.5.1 +websocket-client==0.57.0 +Werkzeug==2.2.3 +wrapt==1.12.1 +xmltodict==0.12.0 +zipp==3.1.0 +zope.event==5.0 +zope.interface==6.1