pyModEst/pyproject.toml at main · BioJazz-Lab/pyModEst · 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
[build-system]
requires = ["setuptools>=77", "wheel"]
build-backend = "setuptools.build_meta"

[project]
name = "pymodest"
version = "0.1.0"
description = "Divide-and-conquer, module-wise parameter estimation for biological models written in Antimony"
readme = "README.md"
requires-python = ">=3.11"
license = "MIT"
license-files = ["LICENSE"]
authors = [{ name = "Song Feng" }]
keywords = ["systems biology", "parameter estimation", "antimony", "sbml", "roadrunner"]
classifiers = [
  "Development Status :: 3 - Alpha",
  "Intended Audience :: Science/Research",
  "Operating System :: OS Independent",
  "Programming Language :: Python :: 3",
  "Programming Language :: Python :: 3.11",
  "Programming Language :: Python :: 3.12",
  "Programming Language :: Python :: 3.13",
  "Topic :: Scientific/Engineering :: Bio-Informatics",
  "Topic :: Scientific/Engineering :: Mathematics",
]
dependencies = [
  "numpy>=1.22",
  "scipy>=1.9",
  "pandas>=1.4",
  "antimony>=2.13",
  "libroadrunner>=2.4",
]

# Development tooling (PEP 735). `uv sync` installs this group by default;
# it is not part of the published package metadata.
[dependency-groups]
dev = [
  "pytest>=7",
]

[project.urls]
Homepage = "https://github.com/BioJazz-Lab/pyModEst"
Documentation = "https://github.com/BioJazz-Lab/pyModEst/tree/main/docs"
Repository = "https://github.com/BioJazz-Lab/pyModEst"
Issues = "https://github.com/BioJazz-Lab/pyModEst/issues"
Changelog = "https://github.com/BioJazz-Lab/pyModEst/releases"

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

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

[tool.pytest.ini_options]
testpaths = ["tests"]
pythonpath = ["src", "tests"]
filterwarnings = ["ignore::DeprecationWarning"]