Update the release process to leverage GitHub Actions

.github/workflows/publish_pybedlite.yml

@@ -0,0 +1,129 @@
+name: publish pybedlite
+
+on:
+  push:
+    tags: '\d+.\d+.\d+'
+
+env:
+  POETRY_VERSION: 1.6
+
+jobs:
+  on-main-branch-check:
+    runs-on: ubuntu-latest
+    outputs:
+      on_main: ${{ steps.contains_tag.outputs.retval }}
+    steps:
+      - uses: actions/checkout@v4
+        with:
+          fetch-depth: 0
+
+      - uses: rickstaa/action-contains-tag@v1
+        id: contains_tag
+        with:
+          reference: "main"
+          tag: "${{ github.ref_name }}"
+
+  tests:
+    name: tests
+    needs: on-main-branch-check
+    if: ${{ needs.on-main-branch-check.outputs.on_main == 'true' }}
+    uses: "./.github/workflows/tests.yml"
+
+  build-wheels:
+    name: build wheels
+    needs: tests
+    uses: "./.github/workflows/wheels.yml"
+
+  build-sdist:
+    name: build source distribution
+    needs: tests
+    runs-on: ubuntu-latest
+    steps:
+      - uses: actions/checkout@v4
+        with:
+          fetch-depth: 0
+          submodules: true
+
+      - uses: actions/setup-python@v5
+        with:
+          python-version: 3.12
+
+      - name: Install poetry
+        run: |
+          python -m pip install --upgrade pip
+          python -m pip install poetry==${{env.POETRY_VERSION}}
+
+      - name: Configure poetry
+        shell: bash
+        run: poetry config virtualenvs.in-project true
+
+      - name: Install dependencies
+        run: poetry install --no-interaction --no-root --without=dev
+
+      - name: Install project
+        run: poetry install --no-interaction --without=dev
+
+      - name: Build package
+        run: poetry build --format=sdist
+
+      - uses: actions/upload-artifact@v4
+        with:
+          name: pybedlite-sdist
+          path: dist/*.tar.gz
+
+  publish-to-pypi:
+    runs-on: ubuntu-latest
+    needs: [build-wheels, build-sdist]
+    environment: pypi
+    permissions:
+      id-token: write
+    steps:
+      - uses: actions/download-artifact@v4
+        with:
+          path: packages
+          pattern: 'pybedlite-*'
+          merge-multiple: true
+
+      - uses: pypa/gh-action-pypi-publish@release/v1
+        with:
+          packages-dir: packages/
+          skip-existing: true
+          verbose: true
+
+  make-changelog:
+    runs-on: ubuntu-latest
+    needs: publish-to-pypi
+    outputs:
+      release_body: ${{ steps.git-cliff.outputs.content }}
+    steps:
+      - name: Checkout the Repository at the Tagged Commit
+        uses: actions/checkout@v4
+        with:
+          fetch-depth: 0
+          ref: ${{ github.ref_name }}
+
+      - name: Generate a Changelog
+        uses: orhun/git-cliff-action@v3
+        id: git-cliff
+        with:
+          config: pyproject.toml
+          args: --latest --verbose
+        env:
+          GITHUB_REPO: ${{ github.repository }}
+
+  make-github-release:
+    runs-on: ubuntu-latest
+    environment: github
+    permissions:
+      contents: write
+      pull-requests: read
+    needs: make-changelog
+    steps:
+      - name: Create Draft Release
+        id: create_release
+        uses: softprops/action-gh-release@v2
+        with:
+          name: ${{ github.ref_name }}
+          body: ${{ needs.make-changelog.outputs.release_body }}
+          draft: false
+          prerelease: false

.github/workflows/tests.yml

@@ -0,0 +1,103 @@
+name: tests
+
+on:
+  push:
+    branches:
+      - "**"
+    tags:
+      - "!**"
+  workflow_call:
+
+env:
+  POETRY_VERSION: 1.6
+
+jobs:
+  unit-tests:
+    runs-on: ubuntu-latest
+    strategy:
+      matrix:
+        PYTHON_VERSION: ["3.8", "3.9", "3.10", "3.11", "3.12"]
+
+    steps:
+      - uses: actions/checkout@v4
+        with:
+          submodules: "true"
+
+      - name: Set up Python ${{ matrix.PYTHON_VERSION }}
+        uses: actions/setup-python@v5
+        with:
+          python-version: ${{ matrix.PYTHON_VERSION }}
+
+      - name: Get full Python version
+        id: full-python-version
+        shell: bash
+        run: echo "version=$(python -c "import sys; print('-'.join(str(v) for v in sys.version_info))")" >> $GITHUB_OUTPUT
+
+      - name: Install poetry
+        run: |
+          python -m pip install --upgrade pip
+          python -m pip install poetry==${{env.POETRY_VERSION}}
+
+      - name: Configure poetry
+        shell: bash
+        run: poetry config virtualenvs.in-project true
+
+      - name: Set up cache
+        uses: actions/cache@v4
+        id: cache
+        with:
+          path: .venv
+          key: venv-${{ runner.os }}-${{ steps.full-python-version.outputs.version }}-${{ hashFiles('**/poetry.lock') }}
+
+      - name: Ensure cache is healthy
+        if: steps.cache.outputs.cache-hit == 'true'
+        shell: bash
+        run: poetry run pip --version >/dev/null 2>&1 || rm -rf .venv
+
+      - name: Test the lock file is up to date
+        run: python -m poetry check --lock
+
+      - name: Install dependencies and package
+        shell: bash
+        run: |
+          poetry install --only dev
+          poetry build
+          poetry install --extras docs
+
+      - name: Run pytest
+        shell: bash
+        run: |
+          poetry run python -m pytest --cov=pybedlite --cov-report=xml --cov-branch 
+
+      - name: Style checking
+        shell: bash
+        run: |
+          poetry run black --line-length 99 --check pybedlite
+
+      - name: Import sorting
+        shell: bash
+        run: |
+          poetry run isort --force-single-line-imports --profile black --check pybedlite
+
+      - name: Run lint
+        shell: bash
+        run: |
+          poetry run flake8 --config=ci/flake8.cfg pybedlite
+
+      - name: Run mypy
+        shell: bash
+        run: |
+          poetry run mypy -p pybedlite --config=ci/mypy.ini
+
+      - name: Run docs
+        shell: bash
+        run: |
+          set -euo pipefail
+          pushd docs
+          poetry run make html
+          popd
+
+      - name: Upload code coverage
+        uses: codecov/[email protected]
+        with:
+          token: ${{ secrets.CODECOV_TOKEN }}

.github/workflows/wheels.yml

@@ -1,17 +1,17 @@
-name: Build wheels for multiple platforms
+name: build wheels
 
 on:
-  push:
-    branches: [main]
+  pull_request:
+  workflow_call:
   workflow_dispatch:
 
 jobs:
-  build_wheels:
+  build-wheels:
     name: Build wheels for ${{ matrix.python }}-${{ matrix.platform.target }}_${{ matrix.platform.arch }} on ${{ matrix.platform.os }}
     runs-on: ${{ matrix.platform.os }}
     strategy:
       matrix:
-        python: [cp38, cp39, cp310, cp311]
+        python: [cp38, cp39, cp310, cp311, cp312]
         platform:
           - os: ubuntu-latest
             target: manylinux
@@ -22,12 +22,12 @@ jobs:
           # These don't work right now - they just hang while pulling the build image from quay.
           # If this doesn't resolve itself, we could try to configure different images:
           # https://cibuildwheel.readthedocs.io/en/stable/options/.
-          #- os: ubuntu-latest
-          #  target: manylinux
-          #  arch: aarch64
-          #- os: ubuntu-latest
-          #  target: musllinux
-          #  arch: aarch64
+          # - os: ubuntu-latest
+          #   target: manylinux
+          #   arch: aarch64
+          # - os: ubuntu-latest
+          #   target: musllinux
+          #   arch: aarch64
           - os: macos-latest
             target: macosx
             arch: x86_64
@@ -40,8 +40,7 @@ jobs:
         with:
           submodules: "true"
 
-      # Used to host cibuildwheel
-      - uses: actions/setup-python@v4
+      - uses: actions/setup-python@v5
         with:
           python-version: 3.8
 
@@ -55,8 +54,8 @@ jobs:
           CIBW_BUILD: ${{ matrix.python }}-${{ matrix.platform.target }}_${{ matrix.platform.arch }}
           CIBW_BUILD_VERBOSITY: 1
 
-      - uses: actions/upload-artifact@v3
+      - uses: actions/upload-artifact@v4
         with:
-          name: wheels
+          name: pybedlite-wheels-${{ matrix.python }}-${{ matrix.platform.target }}_${{ matrix.platform.arch }}
           path: ./wheelhouse/*.whl
           if-no-files-found: error