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ccpp.yml: Copy CI build from kousu/ANTs
This is a duplication of kousu/ANTs#5. It will not work out of the box, because we're missing the ANTs repository. However, I plan to add a preceding `actions/checkout` step that will fill that gap. That way, we're not intermingling our own CI workflow files with the CI workflow files containd within the original ANTSx/ANTs repository.
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‎.github/workflows/ccpp.yml

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name: C/C++ CI
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on:
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push:
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branches: [ master, matrix-build ]
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pull_request:
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branches: [ master ]
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jobs:
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build:
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strategy:
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matrix:
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os: [ubuntu-16.04, ubuntu-18.04, macos-latest]
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runs-on: ${{ matrix.os }}
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steps:
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# first, rewrite OS names to be safe for github artifacts.
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- name: names
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run: |
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OS="${{ matrix.os }}"
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OS=$(echo "$OS" | sed s/://)
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# https://help.github.com/en/actions/reference/workflow-commands-for-github-actions#setting-an-environment-variable
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echo "::set-env name=ARTIFACT::$OS"
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- name: Downgrade OS X Version
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if: matrix.os == 'macos-latest'
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run: |
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echo "::set-env name=CMAKE_CXX_FLAGS::-mmacosx-version-min=10.12"
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- uses: actions/checkout@v1
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- name: context
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run: |
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set -x
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set
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pwd
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whoami
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hostname || true
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df -h || true
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uname -a
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gcc -v
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cmake --version
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ifconfig
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curl ifconfig.me
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continue-on-error: true
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- name: cmake generate
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run: |
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mkdir antsbin
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cd antsbin
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# TODO: check if cmake picks up CMAKE_CXX_FLAGS without being told about it
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cmake \
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-DBUILD_SHARED_LIBS=OFF \
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-DCMAKE_CXX_FLAGS="$CMAKE_CXX_FLAGS" \
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../
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- name: make
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working-directory: antsbin
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run: |
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make VERBOSE=1 -j 4
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timeout-minutes: 300
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# for debugging, don't let a crash/timeout here fail the whole build
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# (github CI seems glitchy about giving reliable output about what happened on timeouts)
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continue-on-error: true
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- name: pre-package
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run: |
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mkdir fakeroot/
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cd antsbin/ANTS-build
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make VERBOSE=1 -j 4 DESTDIR="../../fakeroot" install
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continue-on-error: true
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- name: package
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run: |
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# snip out the apps we need for https://github.com/neuropoly/spinalcordtoolbox, since including all of ANTS is too much
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mkdir sct-apps/
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cp antsbin/ANTS-build/Examples/{antsRegistration,antsSliceRegularizedRegistration,antsApplyTransforms,ComposeMultiTransform} sct-apps
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(cd sct-apps; for i in `ls`; do mv $i isct_$i; done)
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tar -zcvf sct-apps_${{ env.ARTIFACT }}.tar.gz sct-apps/
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continue-on-error: true
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- name: results (DEBUG)
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run: find .
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- name: Upload result
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uses: actions/upload-artifact@v2-preview
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with:
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name: sct-apps_${{ env.ARTIFACT }}
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#path: fakeroot/ # this is 2.3G large in this build
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path: sct-apps_${{ env.ARTIFACT }}.tar.gz
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build-manylinuxes: # Github only supports Ubuntu natively; for other Linuxes, we need to use Docker
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strategy:
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matrix:
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os: ['centos:7', 'centos:8', 'archlinux']
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runs-on: ubuntu-latest
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container: ${{ matrix.os }}
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steps:
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- name: install centos toolchain
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if: contains(matrix.os, 'centos')
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run: |
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yum install -y make gcc gcc-c++ git zlib-devel
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- name: install centos toolchain
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if: contains(matrix.os, 'centos:8')
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run: |
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yum install -y cmake
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- name: install centos toolchain
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if: contains(matrix.os, 'centos:7')
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run: |
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# centos7 has a new enough cmake available, but it's not in the default repo
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yum install -y epel-release
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yum install -y cmake3
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ln -s /usr/bin/cmake3 /usr/bin/cmake # make it the default
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- name: install archlinux toolchain
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if: contains(matrix.os, 'archlinux')
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run: |
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pacman -Syy --noconfirm make cmake gcc git libffi
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# first, rewrite OS names to be safe for github artifacts.
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- name: names
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run: |
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OS="${{ matrix.os }}"
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OS=$(echo "$OS" | sed s/://)
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# https://help.github.com/en/actions/reference/workflow-commands-for-github-actions#setting-an-environment-variable
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echo "::set-env name=ARTIFACT::$OS"
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- uses: actions/checkout@v1
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- name: context
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run: |
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set -x
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set
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pwd
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whoami
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hostname || true
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df -h || true
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uname -a
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gcc -v
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cmake --version
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ifconfig
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curl ifconfig.me
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continue-on-error: true
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- name: cmake generate
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run: |
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mkdir antsbin
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cd antsbin
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cmake \
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-DBUILD_SHARED_LIBS=OFF \
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../
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- name: make
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working-directory: antsbin
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run: |
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make VERBOSE=1 -j 4
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timeout-minutes: 300
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# for debugging, don't let a crash/timeout here fail the whole build
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# (github CI seems glitchy about giving reliable output about what happened on timeouts)
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continue-on-error: true
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- name: pre-package
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run: |
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mkdir fakeroot/
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cd antsbin/ANTS-build
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make VERBOSE=1 -j 4 DESTDIR="../../fakeroot" install
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continue-on-error: true
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- name: package
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run: |
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# snip out the apps we need for https://github.com/neuropoly/spinalcordtoolbox, since including all of ANTS is too much
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mkdir sct-apps/
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cp antsbin/ANTS-build/Examples/{antsRegistration,antsSliceRegularizedRegistration,antsApplyTransforms,ComposeMultiTransform} sct-apps
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(cd sct-apps; for i in `ls`; do mv $i isct_$i; done)
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tar -zcvf sct-apps_${{ env.ARTIFACT }}.tar.gz sct-apps/
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continue-on-error: true
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- name: results (DEBUG)
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run: find .
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- name: Upload result
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uses: actions/upload-artifact@v2-preview
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with:
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name: sct-apps_${{ env.ARTIFACT }}
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#path: fakeroot/ # this is 2.3G large in this build
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path: sct-apps_${{ env.ARTIFACT }}.tar.gz
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release:
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needs: [build, build-manylinuxes]
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runs-on: ubuntu-latest
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steps:
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- name: Create Release
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id: create_release
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uses: actions/create-release@v1
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env:
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GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
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with:
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# name the release with the run_id to allow multiple builds on the same branch/tag
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# https://github.com/actions/create-release/issues/2#issuecomment-613591846
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tag_name: ${{ github.ref }}-${{github.run_id }}
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release_name: Release ${{ github.sha }}
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draft: true
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prerelease: true
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- uses: actions/download-artifact@v1
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with:
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name: sct-apps_centos7
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continue-on-error: true
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- name: checkin # DEBUG
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run: find .
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- name: Upload Release Asset
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uses: actions/upload-release-asset@v1
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env:
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GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
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with:
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upload_url: ${{ steps.create_release.outputs.upload_url }} # This pulls from the CREATE RELEASE step above, referencing it's ID to get its outputs object, which include a `upload_url`. See this blog post for more info: https://jasonet.co/posts/new-features-of-github-actions/#passing-data-to-future-steps
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asset_path: ./sct-apps_centos7/sct-apps_centos7.tar.gz
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asset_name: sct-apps_centos7.tar.gz
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asset_content_type: application/gzip
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continue-on-error: true
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- uses: actions/download-artifact@v1
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with:
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name: sct-apps_centos8
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continue-on-error: true
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- name: checkin # DEBUG
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run: find .
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- name: Upload Release Asset
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uses: actions/upload-release-asset@v1
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env:
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GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
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with:
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upload_url: ${{ steps.create_release.outputs.upload_url }} # This pulls from the CREATE RELEASE step above, referencing it's ID to get its outputs object, which include a `upload_url`. See this blog post for more info: https://jasonet.co/posts/new-features-of-github-actions/#passing-data-to-future-steps
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asset_path: ./sct-apps_centos8/sct-apps_centos8.tar.gz
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asset_name: sct-apps_centos8.tar.gz
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asset_content_type: application/gzip
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continue-on-error: true
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- uses: actions/download-artifact@v1
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with:
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name: sct-apps_archlinux
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continue-on-error: true
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- name: Upload Release Asset
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uses: actions/upload-release-asset@v1
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env:
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GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
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with:
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upload_url: ${{ steps.create_release.outputs.upload_url }}
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asset_path: ./sct-apps_archlinux/sct-apps_archlinux.tar.gz
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asset_name: sct-apps_archlinux.tar.gz
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asset_content_type: application/gzip
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continue-on-error: true
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- uses: actions/download-artifact@v1
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with:
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name: sct-apps_ubuntu-16.04
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continue-on-error: true
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- name: Upload Release Asset
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uses: actions/upload-release-asset@v1
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env:
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GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
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with:
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upload_url: ${{ steps.create_release.outputs.upload_url }}
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asset_path: ./sct-apps_ubuntu-16.04/sct-apps_ubuntu-16.04.tar.gz
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asset_name: sct-apps_ubuntu-16.04.tar.gz
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asset_content_type: application/gzip
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continue-on-error: true
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- uses: actions/download-artifact@v1
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with:
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name: sct-apps_ubuntu-18.04
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continue-on-error: true
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- name: Upload Release Asset
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uses: actions/upload-release-asset@v1
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env:
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GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
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with:
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upload_url: ${{ steps.create_release.outputs.upload_url }}
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asset_path: ./sct-apps_ubuntu-18.04/sct-apps_ubuntu-18.04.tar.gz
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asset_name: sct-apps_ubuntu-18.04.tar.gz
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asset_content_type: application/gzip
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continue-on-error: true
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- uses: actions/download-artifact@v1
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with:
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name: sct-apps_macos-latest
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continue-on-error: true
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- name: Upload Release Asset
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uses: actions/upload-release-asset@v1
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env:
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GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
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with:
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upload_url: ${{ steps.create_release.outputs.upload_url }}
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asset_path: ./sct-apps_macos-latest/sct-apps_macos-latest.tar.gz
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asset_name: sct-apps_macos-latest.tar.gz
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asset_content_type: application/gzip
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continue-on-error: true

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