pyproject.toml

[build-system]
requires = ["setuptools"]
build-backend = "setuptools.build_meta"

[tool.setuptools.packages.find]
where = ["src"]

[project]
name = "leifer_lab_to_nwb"
version="0.1.0"
authors = [
  { name="Cody Baker", email="cody.baker@catalystneuro.com" },
]
description = """Conversion scripts for the Leifer lab.

Includes the publication Neural signal propagation atlas of Caenorhabditis elegans (Nature, 2023).
"""
readme = "README.md"
requires-python = ">=3.12,<3.13"
license = {file = "license.txt"}

keywords = ["leifer", "C elegans", "NWB", "conversion", "open data", "microscopy"]

classifiers = [
    "Programming Language :: Python",
    "Programming Language :: Python :: 3.12",
    "License :: OSI Approved :: BSD License",
    "Intended Audience :: Developers",
    "Operating System :: Microsoft :: Windows",
    "Operating System :: MacOS",
    "Operating System :: Unix",
]

dependencies = [
    "neuroconv",
    "click"
]

[project.optional-dependencies]
randi_nature_2023 = [
    "neuroconv==0.6.1",
    "roiextractors==0.5.6",
    "ndx-subjects==v0.2.0",
    "ndx-patterned-ogen @ git+https://github.com/catalystneuro/ndx-patterned-ogen.git@1880684f33c220c502283dba88a458739df9174e",
    "ndx_microscopy @ git+https://github.com/catalystneuro/ndx-microscopy.git@6f5ceae572394e84d6da3170b757a14b069ab30e",
]

dandi = [
    "dandi",
    "nwbinspector @ git+https://github.com/neurodatawithoutborders/nwbinspector.git@ndx_subjects"
]

[project.scripts]
pump_probe_to_nwb = "leifer_lab_to_nwb.randi_nature_2023._command_line_interface:_pump_probe_to_nwb_cli"

[project.urls]
"Homepage" = "https://github.com/catalystneuro/leifer-lab-to-nwb"
"Bug Tracker" = "https://github.com/catalystneuro/leifer-lab-to-nwb/issues"



[tool.black]
line-length = 120
target-version = ["py312"]
include = '\.pyi?$'
extend-exclude = '''
/(
  \.toml
  |\.yml
  |\.txt
  |\.sh
  |\.git
  |\.ini
  | \.hg
  | \.mypy_cache
  | \.tox
  | \.venv
  | build
  | dist
)/
'''



[tool.ruff]
exclude = [
  "*/__init__.py"
]

[tool.ruff.lint.isort]
relative-imports-order = "closest-to-furthest"
known-first-party = ["leifer_lab_to_nwb"]



[tool.codespell]
skip = '.git*,*.pdf,*.css'
check-hidden = true
ignore-words-list = 'assertin'  # Should be able to remove on next codespell release