Update DNA Barcode Structural Validator to version 0.1.3 and barcode-… #5
Workflow file for this run
This file contains hidden or 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: Galaxy Tool CI/CD Pipeline | |
| on: | |
| push: | |
| branches: [ main, master ] | |
| tags: | |
| - 'v*' # Push events to tags matching v*, i.e. v1.0, v20.15.10 | |
| pull_request: | |
| branches: [ main, master ] | |
| release: | |
| types: [ published ] | |
| jobs: | |
| test: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v3 | |
| - name: Set up Python | |
| uses: actions/setup-python@v4 | |
| with: | |
| python-version: '3.9' | |
| - name: Create Planemo config | |
| env: | |
| USER: ${{ secrets.USER }} | |
| KEY: ${{ secrets.KEY }} | |
| EMAIL: ${{ secrets.EMAIL }} | |
| PASS: ${{ secrets.PASS }} | |
| run: | | |
| mkdir -p $HOME/.planemo | |
| cat > $HOME/.planemo.yml << EOF | |
| shed_username: $USER # your ToolShed username | |
| sheds: | |
| toolshed: | |
| key: $KEY # your ToolShed API key, under 'User > API Keys' | |
| email: $EMAIL # your ToolShed email | |
| password: $PASS # your ToolShed password | |
| EOF | |
| - name: Install Planemo | |
| run: | | |
| pip install planemo | |
| planemo --version | |
| - name: Lint Galaxy tool | |
| run: | | |
| set -e # Ensure script fails on error | |
| planemo lint structural_validator.xml | |
| echo "Lint passed successfully" | |
| - name: Test Galaxy tool | |
| run: | | |
| set -e # Ensure script fails on error | |
| planemo test structural_validator.xml | |
| echo "Tests passed successfully" | |
| deploy: | |
| needs: test | |
| if: startsWith(github.ref, 'refs/tags/v') | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v3 | |
| - name: Set up Python | |
| uses: actions/setup-python@v4 | |
| with: | |
| python-version: '3.9' | |
| - name: Create Planemo config | |
| env: | |
| USER: ${{ secrets.USER }} | |
| KEY: ${{ secrets.KEY }} | |
| EMAIL: ${{ secrets.EMAIL }} | |
| PASS: ${{ secrets.PASS }} | |
| run: | | |
| mkdir -p $HOME/.planemo | |
| cat > $HOME/.planemo.yml << EOF | |
| shed_username: $USER # your ToolShed username | |
| sheds: | |
| toolshed: | |
| key: $KEY # your ToolShed API key, under 'User > API Keys' | |
| email: $EMAIL # your ToolShed email | |
| password: $PASS # your ToolShed password | |
| EOF | |
| - name: Install Planemo | |
| run: pip install planemo | |
| - name: Update Tool Shed | |
| run: planemo shed_update --shed_target toolshed |