python-build-wheels.yml

name: Build wheels

on: [workflow_dispatch]

jobs:
  make_sdist:
    name: Make SDist
    runs-on: ubuntu-latest
    steps:
    - uses: actions/checkout@v4
      with:
        fetch-depth: 0  # Optional, use if you use setuptools_scm
        submodules: true  # Optional, use if you have submodules

    - name: Install dependencies
      run: python -m pip install cython numpy pysam

    - name: Build SDist
      run: pipx run build --sdist

    - uses: actions/upload-artifact@v4
      with:
        name: cibw-sdist
        path: dist/*.tar.gz

  build_wheels:
    name: Build wheels on ${{ matrix.os }}
    runs-on: ${{ matrix.os }}
    strategy:
      matrix:
        # macos-13 is an intel runner, macos-14 is apple silicon
        os: [ubuntu-latest]
        #, windows-latest, macos-13, macos-14]
        python-version: [ "3.11" ] # "3.7", "3.8", "3.9", "3.10",

    steps:
      - uses: actions/checkout@v4
      - name: Set up Python ${{ matrix.python-version }}
        uses: actions/setup-python@v5
        with:
          python-version: ${{ matrix.python-version }}
      # - name: Build wheels
      #   uses: pypa/cibuildwheel@v2.21.0
      #   # uses: pypa/cibuildwheel@v2.17.0
      #   # env:
      #   #   CIBW_SOME_OPTION: value
      #   #    ...
      #   # with:
      #   #   package-dir: .
      #   #   output-dir: wheelhouse
      #   #   config-file: "{package}/pyproject.toml"

      - name: Install cibuildwheel
        run: python -m pip install cibuildwheel==2.22.0

      - name: Build wheels
        run: python -m cibuildwheel --output-dir dist
        # to supply options, put them in 'env', like:
        env:
          #CIBW_BUILD_FRONTEND: "pip; args: --no-build-isolation"
          CIBW_BUILD_FRONTEND: "build; args: --no-isolation"
          CIBW_BEFORE_ALL: "yum install bzip2-devel xz-devel -y;"

          # we have to recompile pysam so that repairwheel can later find various libraries (libssl, libnghttp2, etc)
          #CIBW_BEFORE_ALL: "yum install bzip2-devel xz-devel openssl-devel openldap-devel krb5-devel libssh-devel libnghttp2-devel -y;"
          CIBW_BEFORE_BUILD: "python -m pip install setuptools cython numpy pysam --no-binary pysam" 

          # skip building 32-bit wheels (i686)
          CIBW_ARCHS_LINUX: "auto64"

          # we could use 2_28 to download pysam's wheel instead of compiling it ;
          # HOWEVER THAT DIDN'T WORK BECAUSE PYSAM DEPENDS ON LIBSSL, LIBNGHTTP2, ETC, WHICH CANNOT BE FOUND
          # SO WE ARE BACK TO COMPILING PYSAM'S WHEEL (no-binary pysam)
          # CIBW_MANYLINUX_X86_64_IMAGE: "manylinux_2_28"
          
          ## skip building pypy and musllinux
          CIBW_SKIP: pp* *musllinux*

          #CIBW_REPAIR_WHEEL_COMMAND: 'auditwheel -v repair -w {dest_dir} {wheel}'

          #PIP_NO_CACHE_DIR: "false"
          #PIP_NO_BUILD_ISOLATION: "false"
          #PIP_NO_BINARY: "pysam"

      - uses: actions/upload-artifact@v4
        with:
          name: cibw-wheels-${{ matrix.os }}-${{ strategy.job-index }}
          path: ./dist/*.whl