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setup.cfg
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setup.cfg
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[metadata]
name = monai
author = MONAI Consortium
author_email = monai.contact@gmail.com
url = https://monai.io/
description = AI Toolkit for Healthcare Imaging
long_description = file:README.md
long_description_content_type = text/markdown; charset=UTF-8
platforms = OS Independent
license = Apache License 2.0
license_files =
LICENSE
project_urls =
Documentation=https://docs.monai.io/
Bug Tracker=https://github.com/Project-MONAI/MONAI/issues
Source Code=https://github.com/Project-MONAI/MONAI
classifiers =
Intended Audience :: Developers
Intended Audience :: Education
Intended Audience :: Science/Research
Intended Audience :: Healthcare Industry
Programming Language :: C++
Programming Language :: Python :: 3
Programming Language :: Python :: 3.8
Programming Language :: Python :: 3.9
Programming Language :: Python :: 3.10
Topic :: Scientific/Engineering
Topic :: Scientific/Engineering :: Artificial Intelligence
Topic :: Scientific/Engineering :: Medical Science Apps.
Topic :: Scientific/Engineering :: Information Analysis
Topic :: Software Development
Topic :: Software Development :: Libraries
Typing :: Typed
[options]
python_requires = >= 3.8
# for compiling and develop setup only
# no need to specify the versions so that we could
# compile for multiple targeted versions.
setup_requires =
torch
ninja
install_requires =
torch>=1.9
numpy>=1.20
[options.extras_require]
all =
nibabel
ninja
scikit-image>=0.14.2
scipy>=1.7.1
pillow
tensorboard
gdown>=4.7.3
pytorch-ignite==0.4.11
torchvision
itk>=5.2
tqdm>=4.47.0
lmdb
psutil
cucim-cu12; python_version >= '3.9' and python_version <= '3.10'
openslide-python
tifffile
imagecodecs
pandas
einops
transformers>=4.36.0, <4.41.0; python_version <= '3.10'
mlflow>=2.12.2
clearml>=1.10.0rc0
matplotlib>=3.6.3
tensorboardX
pyyaml
fire
jsonschema
pynrrd
pydicom
h5py
nni
optuna
onnx>=1.13.0
onnxruntime; python_version <= '3.10'
zarr
lpips==0.1.4
nvidia-ml-py
huggingface_hub
nibabel =
nibabel
ninja =
ninja
skimage =
scikit-image>=0.14.2
scipy =
scipy>=1.7.1
pillow =
pillow!=8.3.0
tensorboard =
tensorboard
gdown =
gdown>=4.7.3
ignite =
pytorch-ignite==0.4.11
torchvision =
torchvision
itk =
itk>=5.2
tqdm =
tqdm>=4.47.0
lmdb =
lmdb
psutil =
psutil
cucim =
cucim-cu12
openslide =
openslide-python
tifffile =
tifffile
imagecodecs =
imagecodecs
pandas =
pandas
einops =
einops
transformers =
transformers>=4.36.0, <4.41.0; python_version <= '3.10'
mlflow =
mlflow>=2.12.2
matplotlib =
matplotlib>=3.6.3
clearml =
clearml
tensorboardX =
tensorboardX
pyyaml =
pyyaml
fire =
fire
jsonschema =
jsonschema
pynrrd =
pynrrd
pydicom =
pydicom
h5py =
h5py
nni =
nni
optuna =
optuna
onnx =
onnx>=1.13.0
onnxruntime; python_version <= '3.10'
zarr =
zarr
lpips =
lpips==0.1.4
pynvml =
nvidia-ml-py
# # workaround https://github.com/Project-MONAI/MONAI/issues/5882
# MetricsReloaded =
# MetricsReloaded @ git+https://github.com/Project-MONAI/MetricsReloaded@monai-support#egg=MetricsReloaded
huggingface_hub =
huggingface_hub
[flake8]
select = B,C,E,F,N,P,T4,W,B9
max_line_length = 120
# C408 ignored because we like the dict keyword argument syntax
# E501 is not flexible enough, we're using B950 instead
# N812 lowercase 'torch.nn.functional' imported as non lowercase 'F'
# B023 https://github.com/Project-MONAI/MONAI/issues/4627
# B028 https://github.com/Project-MONAI/MONAI/issues/5855
# B907 https://github.com/Project-MONAI/MONAI/issues/5868
# B908 https://github.com/Project-MONAI/MONAI/issues/6503
# B036 https://github.com/Project-MONAI/MONAI/issues/7396
# E704 https://github.com/Project-MONAI/MONAI/issues/7421
ignore =
E203
E501
E741
W503
W504
C408
N812
B023
B905
B028
B907
B908
B036
E704
per_file_ignores = __init__.py: F401, __main__.py: F401
exclude = *.pyi,.git,.eggs,monai/_version.py,versioneer.py,venv,.venv,_version.py
[isort]
known_first_party = monai
profile = black
line_length = 120
skip = .git, .eggs, venv, .venv, versioneer.py, _version.py, conf.py, monai/__init__.py
skip_glob = *.pyi
add_imports = from __future__ import annotations
append_only = true
[versioneer]
VCS = git
style = pep440
versionfile_source = monai/_version.py
versionfile_build = monai/_version.py
tag_prefix =
parentdir_prefix =
[mypy]
# Suppresses error messages about imports that cannot be resolved.
ignore_missing_imports = True
# Changes the treatment of arguments with a default value of None by not implicitly making their type Optional.
no_implicit_optional = True
# Warns about casting an expression to its inferred type.
warn_redundant_casts = True
# No error on unneeded # type: ignore comments.
warn_unused_ignores = False
# Shows a warning when returning a value with type Any from a function declared with a non-Any return type.
warn_return_any = True
# Prohibit equality checks, identity checks, and container checks between non-overlapping types.
strict_equality = True
# Shows column numbers in error messages.
show_column_numbers = True
# Shows error codes in error messages.
show_error_codes = True
# Use visually nicer output in error messages: use soft word wrap, show source code snippets, and show error location markers.
pretty = False
# Warns about per-module sections in the config file that do not match any files processed when invoking mypy.
warn_unused_configs = True
# Make arguments prepended via Concatenate be truly positional-only.
extra_checks = True
# Allows variables to be redefined with an arbitrary type,
# as long as the redefinition is in the same block and nesting level as the original definition.
# allow_redefinition = True
exclude = venv/
[mypy-versioneer]
# Ignores all non-fatal errors.
ignore_errors = True
[mypy-monai._version]
# Ignores all non-fatal errors.
ignore_errors = True
[mypy-monai.eggs]
# Ignores all non-fatal errors.
ignore_errors = True
[mypy-monai.*]
# Also check the body of functions with no types in their type signature.
check_untyped_defs = True
# Warns about usage of untyped decorators.
disallow_untyped_decorators = True
[mypy-monai.visualize.*,monai.utils.*,monai.optimizers.*,monai.losses.*,monai.inferers.*,monai.config.*,monai._extensions.*,monai.fl.*,monai.engines.*,monai.handlers.*,monai.auto3dseg.*,monai.bundle.*,monai.metrics.*,monai.apps.*]
disallow_incomplete_defs = True
[coverage:run]
concurrency = multiprocessing
source = .
data_file = .coverage/.coverage
omit = setup.py
[coverage:report]
exclude_lines =
pragma: no cover
if TYPE_CHECKING:
# Don't complain if tests don't hit code:
raise NotImplementedError
if __name__ == .__main__.:
show_missing = True
skip_covered = True
[coverage:xml]
output = coverage.xml