environment.yml

# WARNING - DO NOT EDIT THIS FILE MANUALLY
# Please refer to the environment documentation for instructions on how to create a new version of this file: https://github.com/microsoft/InnerEye-DeepLearning/blob/main/docs/environment.md
name: InnerEye
channels:
  - pytorch
  - defaults
dependencies:
  - _libgcc_mutex=0.1=main
  - _openmp_mutex=5.1=1_gnu
  - blas=1.0=mkl
  - blosc=1.21.0=h4ff587b_1
  - bzip2=1.0.8=h7b6447c_0
  - ca-certificates=2022.07.19=h06a4308_0
  - certifi=2022.9.24=py38h06a4308_0
  - cudatoolkit=11.3.1=h2bc3f7f_2
  - ffmpeg=4.2.2=h20bf706_0
  - freetype=2.11.0=h70c0345_0
  - giflib=5.2.1=h7b6447c_0
  - gmp=6.2.1=h295c915_3
  - gnutls=3.6.15=he1e5248_0
  - intel-openmp=2021.4.0=h06a4308_3561
  - jpeg=9e=h7f8727e_0
  - lame=3.100=h7b6447c_0
  - lcms2=2.12=h3be6417_0
  - ld_impl_linux-64=2.38=h1181459_1
  - lerc=3.0=h295c915_0
  - libdeflate=1.8=h7f8727e_5
  - libffi=3.3=he6710b0_2
  - libgcc-ng=11.2.0=h1234567_1
  - libgomp=11.2.0=h1234567_1
  - libidn2=2.3.2=h7f8727e_0
  - libopus=1.3.1=h7b6447c_0
  - libpng=1.6.37=hbc83047_0
  - libstdcxx-ng=11.2.0=h1234567_1
  - libtasn1=4.16.0=h27cfd23_0
  - libtiff=4.4.0=hecacb30_0
  - libunistring=0.9.10=h27cfd23_0
  - libuv=1.40.0=h7b6447c_0
  - libvpx=1.7.0=h439df22_0
  - libwebp=1.2.4=h11a3e52_0
  - libwebp-base=1.2.4=h5eee18b_0
  - lz4-c=1.9.3=h295c915_1
  - mkl=2021.4.0=h06a4308_640
  - mkl-service=2.4.0=py38h7f8727e_0
  - mkl_fft=1.3.1=py38hd3c417c_0
  - mkl_random=1.2.2=py38h51133e4_0
  - ncurses=6.3=h5eee18b_3
  - nettle=3.7.3=hbbd107a_1
  - openh264=2.1.1=h4ff587b_0
  - openssl=1.1.1q=h7f8727e_0
  - pip=20.1.1=py38_1
  - python=3.8.3
  - python-blosc=1.7.0=py38h7b6447c_0
  - pytorch=1.10.0=py3.8_cuda11.3_cudnn8.2.0_0
  - pytorch-mutex=1.0=cuda
  - readline=8.1.2=h7f8727e_1
  - setuptools=63.4.1=py38h06a4308_0
  - sqlite=3.39.3=h5082296_0
  - tk=8.6.12=h1ccaba5_0
  - torchvision=0.11.1=py38_cu113
  - typing_extensions=4.3.0=py38h06a4308_0
  - wheel=0.37.1=pyhd3eb1b0_0
  - x264=1!157.20191217=h7b6447c_0
  - xz=5.2.6=h5eee18b_0
  - zlib=1.2.12=h5eee18b_3
  - zstd=1.5.2=ha4553b6_0
  - pip:
    - absl-py==1.2.0
    - adal==1.2.7
    - aiohttp==3.8.3
    - aiosignal==1.2.0
    - alabaster==0.7.12
    - alembic==1.8.1
    - ansiwrap==0.8.4
    - applicationinsights==0.11.10
    - argon2-cffi==21.3.0
    - argon2-cffi-bindings==21.2.0
    - async-timeout==4.0.2
    - attrs==22.1.0
    - azure-common==1.1.28
    - azure-core==1.26.0
    - azure-graphrbac==0.61.1
    - azure-identity==1.7.0
    - azure-mgmt-authorization==0.61.0
    - azure-mgmt-containerregistry==10.0.0
    - azure-mgmt-core==1.3.2
    - azure-mgmt-datafactory==1.1.0
    - azure-mgmt-keyvault==9.3.0
    - azure-mgmt-resource==12.1.0
    - azure-mgmt-storage==11.2.0
    - azure-storage-blob==12.6.0
    - azureml-automl-core==1.36.1
    - azureml-core==1.36.0.post2
    - azureml-dataprep==2.24.4
    - azureml-dataprep-native==38.0.0
    - azureml-dataprep-rslex==2.0.3
    - azureml-dataset-runtime==1.36.0
    - azureml-mlflow==1.36.0
    - azureml-pipeline==1.36.0
    - azureml-pipeline-core==1.36.0
    - azureml-pipeline-steps==1.36.0
    - azureml-sdk==1.36.0
    - azureml-telemetry==1.36.0
    - azureml-tensorboard==1.36.0
    - azureml-train-automl-client==1.36.0
    - azureml-train-core==1.36.0
    - azureml-train-restclients-hyperdrive==1.36.0
    - babel==2.10.3
    - backports-tempfile==1.0
    - backports-weakref==1.0.post1
    - beautifulsoup4==4.11.1
    - black==22.10.0
    - bleach==5.0.1
    - cachetools==4.2.4
    - cffi==1.15.1
    - charset-normalizer==2.1.1
    - click==8.1.3
    - cloudpickle==1.6.0
    - colorama==0.4.5
    - commonmark==0.9.1
    - conda-merge==0.1.5
    - contextlib2==21.6.0
    - coverage==6.5.0
    - cryptography==3.3.2
    - cycler==0.11.0
    - databricks-cli==0.17.3
    - dataclasses-json==0.5.2
    - debugpy==1.6.3
    - defusedxml==0.7.1
    - deprecated==1.2.13
    - distro==1.8.0
    - docker==4.3.1
    - docutils==0.18.1
    - dotnetcore2==2.1.23
    - entrypoints==0.4
    - execnet==1.9.0
    - fastjsonschema==2.16.2
    - fastmri==0.2.0
    - flake8==3.8.3
    - flask==2.2.2
    - frozenlist==1.3.1
    - fsspec==2022.8.2
    - furo==2022.6.21
    - fusepy==3.0.1
    - gitdb==4.0.9
    - gitpython==3.1.7
    - google-auth==1.35.0
    - google-auth-oauthlib==0.4.6
    - gputil==1.4.0
    - greenlet==1.1.3.post0
    - grpcio==1.49.1
    - gunicorn==20.1.0
    - h5py==2.10.0
    - hi-ml==0.2.5
    - hi-ml-azure==0.2.5
    - humanize==4.4.0
    - idna==3.4
    - imageio==2.15.0
    - imagesize==1.4.1
    - importlib-metadata==5.0.0
    - importlib-resources==5.10.0
    - iniconfig==1.1.1
    - innereye-dicom-rt==1.1.0
    - ipykernel==6.16.0
    - ipython==7.31.1
    - ipython-genutils==0.2.0
    - ipywidgets==8.0.2
    - isodate==0.6.1
    - itsdangerous==2.1.2
    - jeepney==0.8.0
    - jinja2==3.0.2
    - jmespath==0.10.0
    - joblib==0.16.0
    - jsonpickle==2.2.0
    - jsonschema==4.16.0
    - jupyter==1.0.0
    - jupyter-client==6.1.5
    - jupyter-console==6.4.4
    - jupyter-core==4.11.1
    - jupyterlab-pygments==0.2.2
    - jupyterlab-widgets==3.0.3
    - kiwisolver==1.4.4
    - lightning-bolts==0.4.0
    - llvmlite==0.34.0
    - mako==1.2.3
    - markdown==3.4.1
    - markdown-it-py==2.1.0
    - markupsafe==2.1.1
    - marshmallow==3.18.0
    - marshmallow-enum==1.5.1
    - matplotlib==3.3.0
    - mccabe==0.6.1
    - mdit-py-plugins==0.3.1
    - mdurl==0.1.2
    - mistune==2.0.4
    - mlflow==1.23.1
    - mlflow-skinny==1.29.0
    - monai==0.6.0
    - more-itertools==8.14.0
    - msal==1.20.0
    - msal-extensions==0.3.1
    - msrest==0.7.1
    - msrestazure==0.6.4
    - multidict==6.0.2
    - mypy==0.910
    - mypy-extensions==0.4.3
    - myst-parser==0.18.0
    - nbclient==0.7.0
    - nbconvert==7.2.1
    - nbformat==5.7.0
    - ndg-httpsclient==0.5.1
    - nest-asyncio==1.5.6
    - networkx==2.8.7
    - nibabel==4.0.2
    - notebook==6.4.12
    - numba==0.51.2
    - numpy==1.19.1
    - oauthlib==3.2.1
    - opencv-python-headless==4.5.1.48
    - packaging==21.3
    - pandas==1.1.0
    - pandocfilters==1.5.0
    - papermill==2.2.2
    - param==1.9.3
    - pathspec==0.10.1
    - pexpect==4.8.0
    - pillow==9.1.1
    - pkgutil-resolve-name==1.3.10
    - platformdirs==2.5.2
    - pluggy==0.13.1
    - portalocker==2.5.1
    - prometheus-client==0.14.1
    - prometheus-flask-exporter==0.20.3
    - protobuf==3.20.1
    - psutil==5.7.2
    - ptyprocess==0.7.0
    - py==1.11.0
    - pyarrow==3.0.0
    - pyasn1==0.4.8
    - pyasn1-modules==0.2.8
    - pycodestyle==2.6.0
    - pycparser==2.21
    - pydeprecate==0.3.2
    - pydicom==2.0.0
    - pyflakes==2.2.0
    - pyjwt==2.4.0
    - pynndescent==0.5.7
    - pyopenssl==20.0.1
    - pyparsing==3.0.9
    - pyrsistent==0.18.1
    - pysocks==1.7.1
    - pytest==6.0.1
    - pytest-cov==2.10.1
    - pytest-forked==1.3.0
    - pytest-xdist==1.34.0
    - python-dateutil==2.8.2
    - pytorch-lightning==1.6.5
    - pytz==2022.4
    - pywavelets==1.4.1
    - pyyaml==6.0
    - pyzmq==24.0.1
    - qtconsole==5.3.2
    - qtpy==2.2.1
    - querystring-parser==1.2.4
    - requests==2.28.1
    - requests-oauthlib==1.3.1
    - rich==10.13.0
    - rpdb==0.1.6
    - rsa==4.9
    - ruamel-yaml==0.16.12
    - ruamel-yaml-clib==0.2.6
    - runstats==1.8.0
    - scikit-image==0.17.2
    - scikit-learn==0.23.2
    - scipy==1.5.2
    - seaborn==0.10.1
    - secretstorage==3.3.3
    - send2trash==1.8.0
    - simpleitk==1.2.4
    - six==1.15.0
    - smmap==5.0.0
    - snowballstemmer==2.2.0
    - soupsieve==2.3.2.post1
    - sphinx==5.0.2
    - sphinx-argparse==0.3.1
    - sphinx-basic-ng==1.0.0b1
    - sphinx-rtd-theme==1.0.0
    - sphinxcontrib-applehelp==1.0.2
    - sphinxcontrib-devhelp==1.0.2
    - sphinxcontrib-htmlhelp==2.0.0
    - sphinxcontrib-jsmath==1.0.1
    - sphinxcontrib-qthelp==1.0.3
    - sphinxcontrib-serializinghtml==1.1.5
    - sqlalchemy==1.4.41
    - sqlparse==0.4.3
    - stopit==1.1.2
    - stringcase==1.2.0
    - tabulate==0.8.7
    - tenacity==8.1.0
    - tensorboard==2.3.0
    - tensorboard-plugin-wit==1.8.1
    - tensorboardx==2.1
    - terminado==0.16.0
    - textwrap3==0.9.2
    - threadpoolctl==3.1.0
    - tifffile==2022.10.10
    - tinycss2==1.1.1
    - toml==0.10.2
    - tomli==2.0.1
    - torchio==0.18.74
    - torchmetrics==0.6.0
    - tornado==6.2
    - tqdm==4.64.1
    - typing-inspect==0.8.0
    - umap-learn==0.5.2
    - urllib3==1.26.7
    - webencodings==0.5.1
    - websocket-client==1.4.1
    - werkzeug==2.2.2
    - widgetsnbextension==4.0.3
    - wrapt==1.14.1
    - yacs==0.1.8
    - yarl==1.8.1
    - zipp==3.9.0