Connect to Bioconductor Repository #38
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| on: | |
| workflow_dispatch: | |
| inputs: | |
| action: | |
| description: "Type 'push' to push, 'pull' to pull latest changes from Bioconductor's remote. Otherwise, only diff with remote is shown." | |
| required: true | |
| default: "show diff only" | |
| source_branch: | |
| description: "The source branch from GitHub" | |
| required: true | |
| default: "devel" | |
| bioc_branch: | |
| description: "The target branch from Bioc" | |
| required: true | |
| default: "devel" | |
| name: "Connect to Bioconductor Repository" | |
| jobs: | |
| push: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Check out repo ⬇️ | |
| uses: actions/checkout@v3 | |
| with: | |
| fetch-depth: 0 | |
| - name: Connect to Bioconductor Repository | |
| run: | | |
| wd=$PWD | |
| #--- log setup: log everything in log/log.out | |
| mkdir -p log | |
| exec 1>log/log.out 2>&1 | |
| set -ex | |
| #--- ssh setup | |
| mkdir ~/.ssh | |
| cp .github/config ~/.ssh/config | |
| cd ~/.ssh | |
| ssh-agent /bin/sh | |
| eval `ssh-agent -s` | |
| ssh-add - <<< "$SSH_KEY" | |
| ssh-keyscan $BIOC_HOST > ~/.ssh/known_hosts | |
| cd $wd | |
| #--- git config | |
| git config user.name '$MAINTAINER_NAME' | |
| git config user.email '$MAINTAINER_EMAIL' | |
| git remote add bioc git@git.bioconductor.org:packages/mixOmics.git | |
| #--- | |
| git fetch --all # for logs in case of failure | |
| source_branch=${{ github.event.inputs.source_branch }} | |
| bioc_branch=${{ github.event.inputs.bioc_branch }} | |
| if [ "${{ github.event.inputs.action }}" == "push" ]; then | |
| git push bioc $source_branch:$bioc_branch | |
| elif [ "${{ github.event.inputs.action }}" == "pull" ]; then | |
| git merge -X theirs bioc/$bioc_branch --no-edit | |
| git push origin $source_branch:$bioc_branch | |
| else | |
| # show diffs | |
| git checkout -b tmp | |
| git reset --hard bioc/$bioc_branch | |
| echo "source vs bioc:\n\n" | |
| git log $source_branch..tmp --oneline --decorate | |
| echo "bioc vs source:\n\n" | |
| git log tmp..$source_branch --oneline --decorate | |
| fi | |
| env: | |
| SSH_KEY: ${{ secrets.PRIVATE_SSH_KEY_BIOC_MAINTAINER }} | |
| BIOC_HOST: ${{ secrets.BIOC_HOST }} | |
| MAINTAINER_NAME: ${{ secrets.MAINTAINER_NAME }} | |
| MAINTAINER_EMAIL: ${{ secrets.MAINTAINER_EMAIL }} | |
| - name: Upload Logs | |
| if: always() | |
| uses: actions/upload-artifact@master | |
| with: | |
| name: log | |
| path: log |