From 70a1552e5174b0078d6655fbc055994235bc5c09 Mon Sep 17 00:00:00 2001
From: Alexander Temerev <alexander.temerev@epfl.ch>
Date: Tue, 6 Feb 2024 16:14:08 +0100
Subject: [PATCH] GH forkflow for building a wheel

---
 .github/workflows/publish_wheels.yml | 145 +++++++++++++++++++++++++++
 1 file changed, 145 insertions(+)
 create mode 100644 .github/workflows/publish_wheels.yml

diff --git a/.github/workflows/publish_wheels.yml b/.github/workflows/publish_wheels.yml
new file mode 100644
index 00000000..79072585
--- /dev/null
+++ b/.github/workflows/publish_wheels.yml
@@ -0,0 +1,145 @@
+name: Publish sdist and wheels for macos, and manylinux, publish to pypi if a release
+on: [pull_request, push]
+
+env:
+  apt_options: -o Acquire::Retries=3
+
+  CIBW_BUILD_VERBOSITY: 3
+  CIBW_BUILD: 'cp*'
+  CIBW_SKIP: 'cp35-* cp36-* cp37-* *-musllinux_* *-manylinux_i686'
+  CIBW_TEST_COMMAND: ( cd {project}/python/tests; python -m unittest -v )
+
+jobs:
+  build_wheels:
+    name: Build wheels on ${{ matrix.os }}
+
+    if: github.event_name == 'push' || github.event.pull_request.head.repo.full_name != github.repository
+
+    runs-on: ${{ matrix.os }}
+    strategy:
+      matrix:
+        os: [ubuntu-22.04, macos-latest]
+
+    steps:
+      - uses: actions/checkout@v3
+        with:
+          submodules: 'true'
+
+      - uses: actions/setup-python@v4
+        name: Install Python
+        with:
+          python-version: '3.11'
+
+      - name: Install cibuildwheel
+        run: |
+          python -m pip install cibuildwheel
+
+      - name: Cache HDF5 On Linux/macOS
+        if: runner.os == 'Linux' || runner.os == 'macOS'
+        uses: actions/cache@v3
+        id: cache-hdf5-posix
+        env:
+          cache-name: cache-hdf5-posix
+        with:
+          path: src-cache/
+          key: ${{ runner.os }}-build-${{ env.cache-name }}
+
+
+      - name: Build wheels on Linux
+        if: runner.os == 'Linux'
+        run: |
+          # note: config is stored in pyproject.toml now
+          CIBW_MANYLINUX_X86_64_IMAGE=manylinux2014 python -m cibuildwheel --output-dir dist
+          CIBW_MANYLINUX_X86_64_IMAGE=manylinux_2_28 python -m cibuildwheel --output-dir dist
+
+      - name: Build wheels Mac OS
+        if: runner.os == 'macOS'
+
+        env:
+          CIBW_ENVIRONMENT_PASS: "HDF5_ROOT CMAKE_OSX_ARCHITECTURES MACOSX_DEPLOYMENT_TARGET"
+          CIBW_BEFORE_BUILD: |
+            # CMake complains if the dependencies come from within the same tree
+            # as the source, so we'll just pretend they are elsewhere
+            mkdir -p $PWD/src-cache
+            ln -s $PWD/src-cache /Users/runner/work/src-cache
+            bash ci/hdf5-build.sh /Users/runner/work/src-cache
+          UNIXY_AEC_VERSION: 1.0.4
+          UNIXY_HDF5_VERSION: 1.14.2
+        run: |
+          # x86_64 macOS allows for cross compilation; first we do arm64,
+          # only for the 11.0 target; and store in the cache the compiled code...
+          export CIBW_ARCHS_MACOS="arm64"
+          export CMAKE_OSX_ARCHITECTURES="arm64"
+          export MACOSX_DEPLOYMENT_TARGET="11.0"
+          export HDF5_ROOT=/Users/runner/work/src-cache/install-$CIBW_ARCHS_MACOS
+          python -m cibuildwheel --output-dir dist
+
+          # ...and now we do both targets for x86_64
+          export CIBW_ARCHS_MACOS="x86_64"
+          export CMAKE_OSX_ARCHITECTURES="x86_64"
+          unset MACOSX_DEPLOYMENT_TARGET
+          export HDF5_ROOT=/Users/runner/work/src-cache/install-$CIBW_ARCHS_MACOS
+          python -m cibuildwheel --output-dir dist
+
+      - name: Store wheel as artifact
+        uses: actions/upload-artifact@v3
+        with:
+          name: dist
+          path: dist/*.whl
+
+  build_sdist:
+    name: Build sdist
+    if: github.event_name == 'push' || github.event.pull_request.head.repo.full_name != github.repository
+
+    runs-on: ubuntu-latest
+    steps:
+      - uses: actions/checkout@v3
+        with:
+          submodules: 'true'
+
+      - name: Set up Python 3.11
+        uses: actions/setup-python@v4
+        with:
+          python-version: 3.11
+
+      - name: Install packages
+        run: |
+          sudo apt-get ${{env.apt_options}} update -y
+          sudo apt-get ${{env.apt_options}} install -y libhdf5-dev
+          pip install neuron
+          pip install libsonata
+
+      - name: Build a source tarball, check it installs
+        run:
+          ./ci/python_build_sdist.sh
+
+      - name: Store sdist as artifact
+        uses: actions/upload-artifact@v3
+        with:
+          name: dist
+          path: dist/*.tar.gz
+
+#  upload_artifacts:
+#    name: Upload wheels to PyPI
+#    if: github.event_name == 'push' && startsWith(github.ref, 'refs/tags')
+#
+#    runs-on: ubuntu-latest
+#    needs: [build_wheels, build_sdist]
+#
+#    steps:
+#      - name: Download artifacts produced during the build_wheels and build_sdist jobs
+#        uses: actions/download-artifact@v3
+#        with:
+#          name: dist
+#          path: dist/
+#
+#      - name: Display structure of downloaded files
+#        run: ls -R
+#        working-directory: dist
+#
+#      - name: Publish package to PyPI
+#        uses: pypa/gh-action-pypi-publish@master
+#        with:
+#          user: __token__
+#          password: ${{ secrets.PYPI_PASSWORD }}
+#          packages_dir: dist/