napari-cotcotcot/pyproject.toml at main · BIOP/napari-cotcotcot · GitHub

1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
[project]
name = "napari-cotcotcot"
dynamic = ["version"]
description = "A simple napari plugin to use cotracker3 for tracking"
readme = "README.md"
license = {file = "LICENSE"}
authors = [
  {name = "Romain Guiet"},
  {email = "romain.guiet@epfl.ch"},
]
classifiers = [
    "Development Status :: 2 - Pre-Alpha",
    "Framework :: napari",
    "Intended Audience :: Developers",
    "License :: OSI Approved :: BSD License",
    "Operating System :: OS Independent",
    "Programming Language :: Python",
    "Programming Language :: Python :: 3",
    "Programming Language :: Python :: 3 :: Only",
    "Programming Language :: Python :: 3.9",
    "Programming Language :: Python :: 3.10",
    "Programming Language :: Python :: 3.11",
    "Programming Language :: Python :: 3.12",
    "Programming Language :: Python :: 3.13",
    "Topic :: Scientific/Engineering :: Image Processing",
]
# napari can be included in dependencies if napari imports are required.
# However, you should not include napari[all], napari[qt],
# or any other Qt bindings directly (e.g. PyQt5, PySide2).
# See best practices: https://napari.org/stable/plugins/building_a_plugin/best_practices.html
dependencies = [
    "numpy",
    "magicgui",
    "qtpy",
    "pandas",
    "tqdm",
    "tifffile",
    "napari",
    "torch",
]

[project.optional-dependencies]
# Allow easily installation with the full, default napari installation
# (including Qt backend) using napari-cotcotcot[all].
all = ["napari[all]"]

[dependency-groups]
dev = [
    "tox-uv",
    "pytest",  # https://docs.pytest.org/en/latest/contents.html
    "pytest-cov",  # https://pytest-cov.readthedocs.io/en/latest/
    "pytest-qt",  # https://pytest-qt.readthedocs.io/en/latest/
    "napari[qt]",  # test with napari's default Qt bindings
]

[project.entry-points."napari.manifest"]
napari-cotcotcot = "napari_cotcotcot:napari.yaml"

# to enable command line interface, starting rom terminal with naparicot
[project.scripts]
naparicot = "napari_cotcotcot:main"

[build-system]
requires = ["setuptools>=42.0.0", "setuptools_scm"]
build-backend = "setuptools.build_meta"

[tool.setuptools]
include-package-data = true

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

[tool.setuptools.package-data]
"*" = ["*.yaml"]
# to enable package data inclusion
"napari_cotcotcot" = ["/data/Gallus_gallus_domesticus/chicken-run.gif" , "/data/Gallus_gallus_domesticus/seed_Chicken1.csv" ]

[tool.setuptools_scm]
write_to = "src/napari_cotcotcot/_version.py"
fallback_version = "0.0.1+nogit"

[tool.pytest.ini_options]
minversion = "6.0"
addopts = ["-ra", "--showlocals", "--strict-markers", "--strict-config"]
xfail_strict = true
# filterwarnings = ["error"]  # recommended by PP309; deprecation warnings cause failures so leaving for the user to enable if desired
log_cli_level = "INFO"
testpaths = ["tests"]

[tool.black]
line-length = 79
target-version = ['py310', 'py311', 'py312', 'py313']

[tool.ruff]
line-length = 79
lint.select = [
    "E", "F", "W", #flake8
    "UP", # pyupgrade
    "I", # isort
    "BLE", # flake8-blind-exception
    "B", # flake8-bugbear
    "A", # flake8-builtins
    "C4", # flake8-comprehensions
    "ISC", # flake8-implicit-str-concat
    "G", # flake8-logging-format
    "PIE", # flake8-pie
    "SIM", # flake8-simplify
]
lint.ignore = [
    "E501", # line too long. let black handle this
    "UP006", "UP007", # type annotation. As using magicgui require runtime type annotation then we disable this.
]

exclude = [
    ".bzr",
    ".direnv",
    ".eggs",
    ".git",
    ".mypy_cache",
    ".pants.d",
    ".ruff_cache",
    ".svn",
    ".tox",
    ".venv",
    "__pypackages__",
    "_build",
    "buck-out",
    "build",
    "dist",
    "node_modules",
    "venv",
    "*vendored*",
    "*_vendor*",
]
fix = true