Setup to pyproject (#275)

* version still in setup, but everything else is now in pyproject.toml

MANIFEST.in

@@ -2,3 +2,5 @@
 include macapype/utils/*.json
 include macapype/bash/*
 include workflows/params*.json
+
+include macapype/_version.py

pyproject.toml

@@ -0,0 +1,57 @@
+[build-system]
+requires = [
+    "setuptools", "wheel"
+]
+build-backend = "setuptools.build_meta"
+
+[project]
+dynamic = ['version']
+name = "macapype"
+maintainers = [{name = "Macapype developers" }]
+authors= [{name = "Macatools team"}]
+description= "Pipeline for anatomic processing for macaque "
+readme = {content-type = "text/markdown", file = "README.md"}
+requires-python = ">= 3.10"
+license = {text = "BSD-3-Clause"}
+
+dependencies = [
+    "nipype",
+    "rdflib==6.3.1",
+    "pandas==2.2.3",
+    "matplotlib",
+    "nilearn",
+    "networkx",
+    "pybids",
+    "scikit-image",
+    "nibabel",
+    "numpy",
+    "SimpleITK"
+]
+
+[project.optional-dependencies]
+# Dependencies for building the documentation
+doc_deps = [
+     "sphinx",
+     "sphinx-gallery",
+     "sphinx_bootstrap_theme",
+     "numpydoc",
+     "sphinxcontrib-fulltoc"
+]
+
+# Dependencies for test
+test_deps = [
+    "pytest",
+    "pytest-cov",
+    "codecov",
+    ]
+flake_deps = [
+    "flake8"
+    ]
+
+# real calls
+test=["macapype[test_deps, flake_deps]"]
+doc=["macapype[flake_deps, test_deps, doc_deps]"]
+
+
+[tool.setuptools.packages]
+find = {}  # Scanning implicit namespaces is active by default

setup.py

@@ -1,52 +1,31 @@
-#!/usr/bin/env python3
-# -*- coding: utf-8 -*-
+#!/usr/bin/env python
+# emacs: -*- mode: python; py-indent-offset: 4; indent-tabs-mode: nil -*-
+# vi: set ft=python sts=4 ts=4 sw=4 et:
+"""Pydra: Dataflow Engine
 
-import re
-from setuptools import find_packages, setup
-
-verstr = "unknown"
-try:
-    verstrline = open('macapype/_version.py', "rt").read()
-except EnvironmentError:
-    pass  # Okay, there is no version file.
-else:
-    VSRE = r"^__version__ = ['\"]([^'\"]*)['\"]"
-    mo = re.search(VSRE, verstrline, re.M)
-    if mo:
-        verstr = mo.group(1)
-    else:
-        raise RuntimeError("unable to find version in yourpackage/_version.py")
-
-print("Will not build conda module")
+"""
+import sys
+from setuptools import setup
 
-test_deps = ['codecov', 'pytest', 'pytest-cov']
-
-flake_deps = ['flake8']
-
-doc_deps = ['sphinx',
-            'sphinx-gallery',
-            'sphinx_bootstrap_theme',
-            'numpydoc',
-            'sphinxcontrib-fulltoc',
-            'matplotlib']
+import re
 
-with open('requirements.txt') as f:
-    requirements = f.read().splitlines()
+def _get_version():
 
-setup(
-    name="macapype",
-    version=verstr,
-    packages=find_packages(),
-    author="macatools team",
-    description="Pipeline for anatomic processing for macaque",
-    long_description=open('README.md').read(),
-    long_description_content_type='text/markdown',
-    license='BSD 3',
-    entry_points={
-        'console_scripts': ['segment_pnh = workflows.segment_pnh:main']},
-    install_requires=requirements,
-    extras_require={
-        'test': test_deps + flake_deps,
-        'doc': flake_deps + test_deps + doc_deps
-    },
-    include_package_data=True)
+    verstr = "unknown"
+    try:
+        verstrline = open('macapype/_version.py', "rt").read()
+    except EnvironmentError:
+        pass  # Okay, there is no version file.
+    else:
+        VSRE = r"^__version__ = ['\"]([^'\"]*)['\"]"
+        mo = re.search(VSRE, verstrline, re.M)
+        if mo:
+            verstr = mo.group(1)
+        else:
+            raise RuntimeError("unable to find version in yourpackage/_version.py")
+    return verstr
+
+if __name__ == "__main__":
+    setup(
+        version=_get_version()
+    )