[build-system]

requires = [

"scikit-build-core",

"setuptools_scm>=8.0",

"pybind11>=2.9.0",

"scipy!=1.0.0",

"cython",

"numpy>=2.0.0rc1",

]

build-backend = "scikit_build_core.build"

[project]

name = "brainiak"

description = "Brain Imaging Analysis Kit"

requires-python = ">=3.10"

readme = "README.rst"

license = { file = "LICENSE" }

authors = [

{ name = "Princeton Neuroscience Institute and Intel Corporation", email = "mihai.capota@intel.com" }

]

maintainers = [

{ name = "Mihai Capota", email = "mihai.capota@intel.com" }

]

classifiers = [

"Development Status :: 5 - Production/Stable",

"Intended Audience :: Developers",

"Intended Audience :: Information Technology",

"Intended Audience :: Science/Research",

"License :: OSI Approved :: Apache Software License",

"Operating System :: MacOS",

"Operating System :: Microsoft :: Windows",

"Operating System :: POSIX",

"Operating System :: Unix",

"Programming Language :: C++",

"Programming Language :: Python",

"Programming Language :: Python :: 3",

"Programming Language :: Python :: 3 :: Only",

"Programming Language :: Python :: 3.5",

"Programming Language :: Python :: 3.6",

"Programming Language :: Python :: 3.7",

"Programming Language :: Python :: 3.8",

"Programming Language :: Python :: 3.9",

"Programming Language :: Python :: 3.10",

"Programming Language :: Python :: Implementation :: CPython",

"Topic :: Scientific/Engineering",

"Topic :: Scientific/Engineering :: Information Analysis",

"Topic :: Scientific/Engineering :: Mathematics",

"Topic :: Scientific/Engineering :: Medical Science Apps.",

"Topic :: Scientific/Engineering :: Bio-Informatics",

"Topic :: Software Development",

"Topic :: Utilities",

"Typing :: Typed"

]

keywords = ["neuroscience", "algorithm", "fMRI", "distributed", "scalable"]

dynamic = ["version"]

dependencies = [

"numpy>=1.23.5",

"mpi4py>=3", # https://travis-ci.org/brainiak/brainiak/jobs/545838666

"nitime",

"scikit-learn>=0.18",

"scipy!=1.0.0",

"statsmodels",

"pymanopt",

"psutil",

"nibabel",

"joblib",

"wheel>=0.46.2", # See https://github.com/astropy/astropy-helpers/issues/501

"pydicom>=3.0.2",

]

[project.optional-dependencies]

dev = [

"pytest",

"coverage",

"flake8",

"flake8-print",

"mypy",

"myst-nb",

"restructuredtext-lint",

"setuptools_scm",

"sphinx",

"sphinx_rtd_theme",

"towncrier",

"numdifftools",

"testbook",

"pytest-reportlog",

]

matnormal = [

'tensorflow>=2.16',

'tensorflow_probability[tf]<=0.24.0', # Issues with TF 2.18 on intel macs (requreied by TFP 0.25)

]

examples = [

"nilearn",

"nxviz<=0.6.3",

"timecorr",

"seaborn",

"holoviews",

"pyOpenSSL>=26.0.0",

"awscli",

"bcrypt",

"indexed_gzip",

"inflect",

"ipython",

"jupyter",

"mypy",

"nibabel",

"nilearn",

"nodejs",

"numpy",

"pydicom>=3.0.2",

"requests",

"rpyc",

"scikit-learn",

"scipy>=1.6.0",

"toml",

"tornado>=6.5.5",

"websocket-client",

"wsaccel",

"inotify",

"pybids",

"watchdog"

]

all=['brainiak[dev,matnormal,examples]']

[project.urls]

Homepage = "http://brainiak.org"

Documentation = "https://brainiak.org/docs/"

"Bug Tracker" = "https://github.com/brainiak/brainiak/issues"

Changelog = "https://brainiak.org/docs/release_notes.html"

Chat = "https://gitter.im/brainiak/brainiak"

[tool.setuptools_scm]

write_to = "src/brainiak/_version.py"

[tool.scikit-build]

minimum-version = "0.4"

build-dir = "build/{wheel_tag}"

metadata.version.provider = "scikit_build_core.metadata.setuptools_scm"

sdist.include = [

"tests/io/data/*",

"src/brainiak/_version.py",

"src/brainiak/utils/sim_parameters",

]

cmake.build-type = "Release"

[tool.cibuildwheel]

test-extras = ["matnormal", "dev"]

test-command = "python -m pytest {project}/tests"

archs = ["auto64"]

skip = [

"cp313*", "cp314*", # Tensorflow wheels are not available for Python 3.13 and 3.14

"*musllinux*", # Tensorflow wheels are not available for musllinux

]

[tool.cibuildwheel.linux]

before-all = [

"yum --disablerepo=epel install -y mpich mpich-devel",

]

[tool.cibuildwheel.linux.environment]

PATH = "/usr/lib64/mpich/bin:$PATH"

[tool.coverage.run]

source = ["brainiak"]

branch = true

concurrency = ["multiprocessing"]

parallel = true

[tool.coverage.report]

fail_under = 90

[tool.pytest.ini_options]

addopts = "-s --durations=0"

markers = [

"notebook: marks example notebook tests",

]

[tool.towncrier]

directory = "docs/newsfragments"

package = "brainiak"

template = "docs/newsfragments/_template.jinja"

title_format = "BrainIAK {version} ({project_date})"

[[tool.towncrier.type]]

directory = "feature"

name = "Features"

showcontent = true

[[tool.towncrier.type]]

directory = "bugfix"

name = "Bugfixes"

showcontent = true

[[tool.towncrier.type]]

directory = "doc"

name = "Documentation improvements"

showcontent = true

[[tool.towncrier.type]]

directory = "removal"

name = "Deprecations and removals"

showcontent = true