Merge pull request #507 from galaxyproject/switch_to_cloudnativepg #623
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| name: Linting and deployment test on K3S | |
| on: | |
| push: | |
| branches: | |
| - master | |
| - anvil | |
| pull_request: {} | |
| workflow_dispatch: {} | |
| jobs: | |
| linting: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Install Kubectl | |
| run: curl -LO "https://storage.googleapis.com/kubernetes-release/release/$(curl -s https://storage.googleapis.com/kubernetes-release/release/stable.txt)/bin/linux/amd64/kubectl" && chmod +x ./kubectl && sudo mv ./kubectl /usr/local/bin/kubectl && kubectl version || true | |
| - name: Install Helm | |
| run: curl https://raw.githubusercontent.com/helm/helm/master/scripts/get-helm-3 | bash | |
| - uses: actions/checkout@v3 | |
| with: | |
| persist-credentials: false | |
| - name: Helm dep update for galaxy | |
| run: cd galaxy/ && helm dep update && cd .. | |
| - name: Helm linting for galaxy | |
| run: helm lint galaxy/ | |
| test: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Install Helm | |
| run: curl https://raw.githubusercontent.com/helm/helm/master/scripts/get-helm-3 | bash | |
| - uses: actions/checkout@v3 | |
| with: | |
| persist-credentials: false | |
| - name: Helm dep update for galaxy | |
| run: cd galaxy/ && helm dep update && cd .. | |
| - name: Start k8s locally | |
| uses: jupyterhub/action-k3s-helm@v3 | |
| with: | |
| k3s-version: v1.30.4+k3s1 # releases: https://github.com/k3s-io/k3s/tags | |
| metrics-enabled: false | |
| traefik-enabled: false | |
| - name: Verify function of k8s, kubectl, and helm | |
| run: | | |
| echo "kubeconfig: $KUBECONFIG" | |
| kubectl version | |
| kubectl get pods --all-namespaces | |
| helm version | |
| helm list | |
| - name: Helm repo add galaxy | |
| run: helm repo add galaxy https://github.com/CloudVE/helm-charts/raw/master | |
| - name: Helm install galaxy-helm-deps | |
| run: time bash -c 'helm install --create-namespace --wait -n "galaxy-deps" "galaxy-deps" galaxy/galaxy-deps --set cvmfs.cvmfscsi.cache.alien.enabled=false --wait --timeout=1200s' | |
| - name: Helm install Galaxy | |
| run: time bash -c 'helm install --create-namespace -n galaxy galaxy ./galaxy --set persistence.accessMode="ReadWriteOnce" --set resources.requests.memory=0Mi,resources.requests.cpu=0m --wait --timeout=1200s' | |
| - name: Get events | |
| run: kubectl get events -n galaxy; kubectl get events -n csi-drivers; | |
| if: always() | |
| - name: Get pods, pvc, and pv | |
| run: kubectl get pods -n galaxy; kubectl get pvc -n galaxy; kubectl get pv -n galaxy | |
| if: always() | |
| - name: Print web handler log | |
| run: bash -c "kubectl logs -n galaxy $(kubectl -n galaxy get pods | grep -o '[^ ]*galaxy-web[^ ]*')" | |
| if: always() | |
| - name: Print job handler log | |
| run: bash -c "kubectl logs -n galaxy $(kubectl -n galaxy get pods | grep -o '[^ ]*galaxy-job[^ ]*')" | |
| if: always() | |
| - name: Print workflow handler log | |
| run: bash -c "kubectl logs -n galaxy $(kubectl -n galaxy get pods | grep -o '[^ ]*galaxy-workflow[^ ]*')" | |
| if: always() | |
| - name: Check appVersion | |
| if: always() | |
| run: | | |
| kubectl get svc -n galaxy | |
| kubectl describe svc -n galaxy galaxy-nginx | |
| appVersion=$(cat galaxy/Chart.yaml | grep ^appVersion: | awk '{print $2}' | tr -d '"') | |
| address=$(kubectl get svc -n galaxy galaxy-nginx -o jsonpath="http://{.spec.clusterIP}:{.spec.ports[0].port}/galaxy/api/version") | |
| echo "Address is $address" | |
| apiVersion=$(curl $address | jq -r '"\(.version_major).\(.version_minor)"') | |
| echo "appVersion: $appVersion" | |
| echo "apiVersion: $apiVersion" | |
| if [ "$appVersion" != "$apiVersion" ]; then | |
| exit 1 | |
| fi |