build-ants.yml

name: Build ANTs

on:
  pull_request:
    branches: [ master ]
  workflow_dispatch:

jobs:

  build:
    strategy:
      matrix:
        os: [ubuntu-latest, macos-latest]
    runs-on: ${{ matrix.os }}
    steps:
    # first, rewrite OS names to be safe for github artifacts.
    - name: names
      run: |
        OS="${{ matrix.os }}"
        OS=$(echo "$OS" | sed s/://)
        echo "ARTIFACT=$OS" >> $GITHUB_ENV
    - name: package
      run: |
        # download and extract pre-built ants
        case "${{ env.ARTIFACT }}" in
          ubuntu-latest)
            URL="https://github.com/spinalcordtoolbox/build_ANTs/releases/download/r20220516-2/sct-apps_centos7.tar.gz"
            ;;
          macos-latest)
            URL="https://github.com/spinalcordtoolbox/build_ANTs/releases/download/r20220516-2/sct-apps_macos-10.15.tar.gz"
            ;;
          esac
        curl -L "$URL" -o ants-unix.tar.gz
        unzip ants-unix.tar.gz
        # snip out the apps we need for https://github.com/neuropoly/spinalcordtoolbox, since including all of ANTS is too much
        mkdir sct-apps/
        cp ants-2.4.4/bin/{antsRegistration,antsSliceRegularizedRegistration,antsApplyTransforms,ComposeMultiTransform} sct-apps
        (cd sct-apps; for i in *; do mv $i isct_$i; done)
        cp COPYING.txt sct-apps
        tar -zcvf sct-apps_${{ env.ARTIFACT }}.tar.gz sct-apps/
      continue-on-error: true
    - name: results (DEBUG)
      run: find .
    - name: Upload result
      uses: actions/upload-artifact@v4
      with:
        name: sct-apps_${{ env.ARTIFACT }}
        #path: fakeroot/ # this is 2.3G large in this build
        path: sct-apps_${{ env.ARTIFACT }}.tar.gz

  build-manylinuxes: # Github only supports Ubuntu natively; for other Linuxes, we need to use Docker
    strategy:
      matrix:
        os: ['quay.io/centos/centos:stream8']
    runs-on: ubuntu-latest
    container: ${{ matrix.os }}
    steps:
    - name: install centos toolchain
      if: contains(matrix.os, 'centos:stream8')
      run: |
        yum install -y unzip
    - name: package
      run: |
        # download and extract pre-built ants
        curl -L "https://github.com/ANTsX/ANTs/releases/download/v2.4.4/ants-2.4.4-centos7-X64-gcc.zip" -o ants-centos.tar.gz
        unzip ants-centos.tar.gz
        # snip out the apps we need for https://github.com/neuropoly/spinalcordtoolbox, since including all of ANTS is too much
        mkdir sct-apps/
        cp ants-2.4.4/bin/{antsRegistration,antsSliceRegularizedRegistration,antsApplyTransforms,ComposeMultiTransform} sct-apps
        (cd sct-apps; for i in `ls`; do mv $i isct_$i; done)
        cp COPYING.txt sct-apps
        tar -zcvf sct-apps_${{ env.ARTIFACT }}.tar.gz sct-apps/
      continue-on-error: true
    - name: results (DEBUG)
      run: find .
    - name: Upload result
      uses: actions/upload-artifact@v4
      with:
        name: sct-apps_centos-8
        #path: fakeroot/ # this is 2.3G large in this build
        path: sct-apps_centos-8.tar.gz

  build-windows:
    strategy:
      matrix:
        os: [ windows-latest ]
    runs-on: ${{ matrix.os }}
    defaults:
      run:
        shell: bash
    steps:
    # first, rewrite OS names to be safe for github artifacts.
    - name: names
      run: |
        OS="${{ matrix.os }}"
        OS=$(echo "$OS" | sed s/://)
        echo "ARTIFACT=$OS" >> $GITHUB_ENV
    - name: package
      run: |
        curl -L "https://github.com/ANTsX/ANTs/releases/download/v2.4.4/ants-2.4.4-ubuntu-22.04-X64-gcc.zip" -o ants-windows.tar.gz
        unzip ants-windows.tar.gz
        # snip out the apps we need for https://github.com/neuropoly/spinalcordtoolbox, since including all of ANTS is too much
        mkdir sct-apps/
        cp ants-2.4.4/bin/{antsRegistration,antsSliceRegularizedRegistration,antsApplyTransforms,ComposeMultiTransform}.exe sct-apps
        (cd sct-apps; for i in `ls`; do mv $i isct_$i; done)
        cp COPYING.txt sct-apps
        tar -zcvf sct-apps_${{ env.ARTIFACT }}.tar.gz sct-apps/
      continue-on-error: true
    - name: results (DEBUG)
      run: find .
    - name: Upload result
      uses: actions/upload-artifact@v4
      with:
        name: sct-apps_${{ env.ARTIFACT }}
        path: sct-apps_${{ env.ARTIFACT }}.tar.gz

  release:
    needs: [build, build-manylinuxes, build-windows]
    runs-on: ubuntu-latest
    steps:
      - uses: actions/download-artifact@v4
        with:
          name: sct-apps_centos-8
        continue-on-error: true
      - name: checkin # DEBUG
        run: find .

#      - uses: actions/download-artifact@v4
#        with:
#          name: sct-apps_centos8
#        continue-on-error: true
#      - name: checkin # DEBUG
#        run: find .
#      - uses: actions/download-artifact@v4
#        with:
#          name: sct-apps_archlinux
#        continue-on-error: true

      - uses: actions/download-artifact@v4
        with:
          name: sct-apps_ubuntu-latest
        continue-on-error: true

      - uses: actions/download-artifact@v4
        with:
          name: sct-apps_macos-latest
        continue-on-error: true

      - uses: actions/download-artifact@v4
        with:
          name: sct-apps_windows-latest
        continue-on-error: true

      - name: Create Release
        id: create_release
        uses: ncipollo/release-action@v1
        env:
          GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
        with:
          # name the release with the run_id to allow multiple builds on the same branch/tag
          # https://github.com/actions/create-release/issues/2#issuecomment-613591846
          tag: ${{ github.ref }}-${{github.run_id }}
          name: Release ${{ github.sha }}
          draft: true
          prerelease: true
          artifacts: 'sct-apps_centos-8/sct-apps_centos-8.tar.gz,sct-apps_ubuntu-latest/sct-apps_ubuntu-latest.tar.gz,sct-apps_macos-latest/sct-apps_macos-latest.tar.gz,sct-apps_windows-latest/sct-apps_windows-latest.tar.gz'