Use pyproject.toml inplace of setup.py

Correct zarr to be an optional dependency.
Update version to use generation _version.py file.
Update GH Actions in main.
Update minimum version of Python to 3.8

.github/workflows/main.yml

@@ -40,7 +40,7 @@ jobs:
     runs-on: ubuntu-latest
     strategy:
       matrix:
-        python-version: [3.7, 3.8, 3.9, '3.10', '3.11']
+        python-version: [3.8, 3.9, '3.10', '3.11']
 
     steps:
     - uses: actions/checkout@v3
@@ -53,7 +53,7 @@ jobs:
     - name: Install dependencies
       run: |
         python -m pip install --upgrade pip
-        pip install -r requirements.txt -r requirements-dev.txt
+        pip install -e .[zarr,dev]
     - name: Test with pytest
       run: |
         python -m pytest
@@ -65,14 +65,14 @@ jobs:
       - uses: actions/checkout@v3
         with:
           fetch-depth: 0
-      - name: Set up Python 3.7
+      - name: Set up Python 3.11
         uses: actions/setup-python@v4
         with:
-          python-version: 3.7
+          python-version: 3.11
       - name: Install dependencies
         run: |
           python -m pip install --upgrade pip
-          python -m pip install -r requirements.txt -r docs/requirements.txt twine build
+          python -m pip install -e .[zarr] twine build
       - name: Build package
         run: |
           python -m build --wheel --sdist
@@ -86,8 +86,7 @@ jobs:
           path: dist
       - name: Build Sphinx Documentation
         run: |
-          # install so that setuptools_scm generate version for package
-          pip install -e .
+          pip install -r docs/requirements.txt
           make -C docs html
       - name: Upload documentation
         if: github.event_name == 'push'
@@ -109,21 +108,3 @@ jobs:
         env:
           GITHUB_TOKEN: ${{ secrets.github_token }}
           TARGET_BRANCH: 'gh-pages'
-
-  github_release:
-    if: startsWith(github.ref, 'refs/tags/v')
-    needs: package_docs
-    runs-on: ubuntu-latest
-    steps:
-      - uses: actions/download-artifact@v3
-        id: download
-        with:
-          name: python-packages
-      - name: Create Release and Upload
-        if: github.event_name == 'push' && startsWith(github.ref, 'refs/tags/v')
-        id: create_release
-        env:
-          GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
-        run: |
-          gh release create ${{ github.ref_name }} --repo ${{ github.repository }} --verify-tag --generate-notes --title "Release ${{ github.ref_name }}"
-          gh release upload ${{ github.ref_name }} --repo ${{ github.repository }} ${{steps.download.outputs.download-path}}/*

.gitignore

@@ -8,3 +8,4 @@ build
 dist
 sitkibex.dist-info
 sitkibex.egg-info
+_version.py

docs/requirements.txt

@@ -1,2 +1,3 @@
 sphinx
-sphinx-click
+sphinx-click
+-r ../requirements.txt

pyproject.toml

@@ -1,5 +1,38 @@
 [build-system]
-requires = ["setuptools>=42", "wheel", "setuptools_scm[toml]>=3.4"]
+requires = ["setuptools>=61.0", "wheel", "setuptools_scm[toml]>=6.2"]
+build-backend = "setuptools.build_meta"
+
+[project]
+name = "sitkibex"
+authors = [
+  { name="Bradley Lowekamp", email="bioinformatics@niaid.nih.gov" },
+]
+description = "Image registration for iterative fluorescence microscopy"
+readme = "README.rst"
+requires-python = ">=3.8"
+classifiers = [
+    "Programming Language :: Python :: 3",
+    "License :: OSI Approved :: Apache Software License",
+    "Operating System :: OS Independent",
+]
+dynamic = ["dependencies", "version"]
+
+
+[project.optional-dependencies]
+zarr= ["zarr"]
+dev = [
+  "pytest",
+  "flake8",
+]
+
+[tool.setuptools.dynamic]
+dependencies = {file = ["requirements.txt"]}
+
+
+[tool.setuptools_scm]
+write_to = "sitkibex/_version.py"
+local_scheme = "dirty-tag"
+
 
 [tool.pytest.ini_options]
 junit_family = "xunit2"

requirements.txt

@@ -1,4 +1,3 @@
 SimpleITK >= 2.0.0
 click
 numpy
-zarr

sitkibex/__init__.py

@@ -17,20 +17,9 @@
 from .resample import resample
 
 try:
-    from importlib.metadata import version, PackageNotFoundError
-
-    __version__ = version(__name__)
+    from ._version import version as __version__
 except ImportError:
-    from pkg_resources import get_distribution, DistributionNotFound
-
-    try:
-        __version__ = get_distribution(__name__).version
-    except DistributionNotFound:
-        # package is not installed
-        pass
-except PackageNotFoundError:
-    # package is not installed
-    pass
+    __version__ = "unknown version"
 
 __author__ = ["Bradley Lowekamp"]