pyproject.toml

[build-system]
requires = [
  "scikit-build-core>=0.10,<0.12",
  "nanobind>=2.7,<3",
]
build-backend = "scikit_build_core.build"

[project]
name = "microsimulator"
version = "0.1.0"
description = "Microfluidic simulation of microbial populations, flow, and solute transport"
readme = "README.md"
license = { file = "LICENSE" }
requires-python = ">=3.12,<3.13"
authors = [{ name = "DRAGGON Lab" }]
classifiers = [
  "Development Status :: 2 - Pre-Alpha",
  "Intended Audience :: Science/Research",
  "License :: OSI Approved :: MIT License",
  "Programming Language :: C++",
  "Programming Language :: Python :: 3.12",
]
dependencies = [
    "numpy>=2.1,<3",
    "rfc8785>=0.1.4,<0.2",
]

[project.urls]
Repository = "https://github.com/DRAGGON-Lab/MicroSimulator"
Issues = "https://github.com/DRAGGON-Lab/MicroSimulator/issues"

[project.optional-dependencies]
analysis = [
  "polars>=1.43,<2",
  "pyarrow>=25,<26",
  "zarr>=3.2.1,<4",
]
sbml = [
  "python-libsbml>=5.21.1,<6",
]
viewer = [
  "aiohttp>=3.14.3,<4",
]

[project.scripts]
microsimulator = "microsimulator.cli:main"

[dependency-groups]
dev = [
  "aiohttp>=3.14.3,<4",
  "polars>=1.43,<2",
  "pyarrow>=25,<26",
  "pytest>=8.3,<9",
  "pyright>=1.1.390,<2",
  "python-libsbml>=5.21.1,<6",
  "ruff>=0.9,<1",
  "zarr>=3.2.1,<4",
]

[tool.scikit-build]
cmake.build-type = "Release"
wheel.packages = ["python/src/microsimulator"]
build-dir = "build/python/{wheel_tag}"

[tool.pytest.ini_options]
addopts = "-ra --strict-config --strict-markers"
testpaths = ["python/tests"]

[tool.ruff]
target-version = "py312"
line-length = 100

[tool.ruff.lint]
select = ["B", "E", "F", "I", "N", "RUF", "SIM", "UP"]

[tool.pyright]
pythonVersion = "3.12"
typeCheckingMode = "strict"
include = ["python/src", "python/tests"]
exclude = ["python/tests/fixtures"]