Update tool MWA to 0.0.1+galaxy0 #378
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| name: Preview PR on galaxy.odahub.fr | |
| on: | |
| pull_request: | |
| branches: | |
| - main | |
| types: | |
| - opened | |
| - labeled | |
| - synchronize | |
| - unlabeled | |
| - closed | |
| paths-ignore: | |
| - '.github/**' | |
| - 'deprecated/**' | |
| - 'docs/**' | |
| - '*' | |
| env: | |
| GALAXY_FORK: galaxyproject | |
| GALAXY_BRANCH: release_23.1 | |
| jobs: | |
| setup: | |
| if: contains( github.event.pull_request.labels.*.name, 'test-live') && github.event.action != 'closed' | |
| name: Determine changed repositories | |
| runs-on: ubuntu-latest | |
| outputs: | |
| tool-list: ${{ steps.discover.outputs.tool-list }} | |
| steps: | |
| - uses: actions/setup-python@v4 | |
| with: | |
| python-version: "3.8" | |
| - uses: actions/checkout@v3 | |
| with: | |
| fetch-depth: 0 | |
| - name: Fake a Planemo run to determine tool list | |
| uses: galaxyproject/planemo-ci-action@v1 | |
| id: discover | |
| with: | |
| galaxy-fork: ${{ env.GALAXY_FORK }} | |
| galaxy-branch: ${{ env.GALAXY_BRANCH }} | |
| python-version: "3.7" | |
| - name: Show tool list | |
| run: echo '${{ steps.discover.outputs.tool-list }}' | |
| # deploy the tools | |
| deploy: | |
| name: Deploy | |
| if: contains( github.event.pull_request.labels.*.name, 'test-live') && needs.setup.outputs.tool-list | |
| needs: setup | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v3 | |
| - name: Install requirenments | |
| run: sudo apt-get install -y ansible | |
| - name: Install SSH key | |
| uses: shimataro/ssh-key-action@v2 | |
| with: | |
| key: ${{ secrets.SSH_PRIVATE_KEY }} | |
| known_hosts: ${{ secrets.KNOWN_HOSTS }} | |
| - name: Deploy tools | |
| env: | |
| TOOL_LIST: ${{ needs.setup.outputs.tool-list }} | |
| pr_num: ${{ github.event.pull_request.number }} | |
| run: | | |
| cd deploy-preview | |
| dir_list=`for tl in $TOOL_LIST ; do echo $tl | awk -F '/' '{for(i=2;i<=(NF-1);i++) printf("%s%s",$i,i==(NF-1)?" ":FS)}'; done | uniq` | |
| for dr in $dir_list; do | |
| tools_list=`for tl in $TOOL_LIST; do if [[ "$tl" == *"$dr"* ]] ; then basename $tl ; fi ; done` | |
| export tools_list | |
| export tool_dir=$dr | |
| ansible-playbook deploy.yml | |
| done | |
| uninstall: | |
| name: Uninstall | |
| if: contains( github.event.pull_request.labels.*.name, 'test-live') == false || github.event.action == 'closed' | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v3 | |
| - name: Install requirenments | |
| run: sudo apt-get install -y ansible | |
| - name: Install SSH key | |
| uses: shimataro/ssh-key-action@v2 | |
| with: | |
| key: ${{ secrets.SSH_PRIVATE_KEY }} | |
| known_hosts: ${{ secrets.KNOWN_HOSTS }} | |
| - name: Uninstall tools | |
| env: | |
| pr_num: ${{ github.event.pull_request.number }} | |
| run: | | |
| cd deploy-preview | |
| ansible-playbook remove.yml |