diff --git a/.github/actions/containerize/action.yaml b/.github/actions/containerize/action.yaml new file mode 100644 index 00000000..483e72d9 --- /dev/null +++ b/.github/actions/containerize/action.yaml @@ -0,0 +1,52 @@ +name: Containerize application +description: Build and optionally push a container image +inputs: + registry: + description: Container registry (e.g., docker.io, ghcr.io, etc.) + required: false + default: docker.io + repository: + description: Container repository (e.g., username/repo) + required: true + tag: + description: Tag for the container image + required: true + containerfile-path: + description: Path to the Dockerfile + required: false + default: oci/Containerfile + push: + description: Whether to push the container image + required: false + default: "false" + extra-build-args: + description: Build arguments for the container build (key=value pairs, comma-separated) + required: false + default: "" + registry-username: + description: Username for the container registry (if pushing) + required: true + registry-password: + description: Password for the container registry (if pushing) + required: true + working-directory: + description: The working directory to run the action in + required: true + +runs: + using: composite + steps: + - name: Login to registry + shell: bash + if: ${{ inputs.push }} == 'true' + run: buildah login -u ${{ inputs.registry-username }} -p "${{ inputs.registry-password }}" ${{ inputs.registry }} + - name: Build container file + shell: bash + working-directory: ${{ inputs.working-directory }} + run: buildah build -t ${{ inputs.registry }}/${{ inputs.repository }}:${{ inputs.tag }} ${{ inputs.extra-build-args }} -f ${{ inputs.containerfile-path }} . + - name: Push container image + shell: bash + if: ${{ inputs.push }} == 'true' + run: | + buildah push ${{ inputs.registry }}/${{ inputs.repository }}:${{ inputs.tag }} docker://${{ inputs.registry }}/${{ inputs.repository }}:${{ inputs.tag }} + buildah logout ${{ inputs.registry }} diff --git a/.github/actions/helm-lint/action.yaml b/.github/actions/helm-lint/action.yaml new file mode 100644 index 00000000..6dafcf5f --- /dev/null +++ b/.github/actions/helm-lint/action.yaml @@ -0,0 +1,25 @@ +name: Helm Lint +description: Lint a Helm chart +inputs: + working-directory: + description: The working directory to run the action in + required: true + chart: + description: Path to the Helm chart to lint + required: false + default: . + values: + description: Additional values to pass to helm lint command + required: false + default: "" +runs: + using: "composite" + steps: + - name: Lint helm chart + shell: bash + working-directory: ${{ inputs.working-directory }} + run: helm lint ${{ inputs.chart }} --strict ${{ inputs.values }} > /dev/null + - name: Template helm chart + shell: bash + working-directory: ${{ inputs.working-directory }} + run: helm template chart ${{ inputs.chart }} ${{ inputs.values }} > /dev/null diff --git a/.github/workflows/dashboard-pull-request.yaml b/.github/workflows/dashboard-pull-request.yaml new file mode 100644 index 00000000..bb22ef4a --- /dev/null +++ b/.github/workflows/dashboard-pull-request.yaml @@ -0,0 +1,33 @@ +name: Dashboard - pull request +on: + pull_request: + branches: + - "**" +jobs: + get-changed-files: + name: Get changed file + runs-on: ubuntu-latest + outputs: + any-changed: ${{ steps.changed.outputs.any_changed }} + concurrency: + group: ${{ github.workflow }}-${{ github.ref }}-get-changed-files + cancel-in-progress: true + steps: + - name: Checkout + uses: actions/checkout@v4 + - name: Check if Dashboard files were changed + id: changed + uses: tj-actions/changed-files@v45 + with: + files: | + app/databuk/dashboard/** + build: + name: Build and lint dashboard + needs: + - get-changed-files + if: ${{ needs.get-changed-files.outputs.any-changed }} == 'true' + uses: ./.github/workflows/dashboard-reusable-workflow.yaml + with: + tag: generate + deploy: false + secrets: inherit diff --git a/.github/workflows/dashboard-push-main.yaml b/.github/workflows/dashboard-push-main.yaml new file mode 100644 index 00000000..edb88c69 --- /dev/null +++ b/.github/workflows/dashboard-push-main.yaml @@ -0,0 +1,33 @@ +name: Dashboard - push main +on: + push: + branches: + - main + workflow_dispatch: +jobs: + get-changed-files: + name: Get changed file + runs-on: ubuntu-latest + outputs: + any-changed: ${{ steps.changed.outputs.any_changed }} + concurrency: + group: ${{ github.workflow }}-${{ github.ref }}-get-changed-files + cancel-in-progress: true + steps: + - name: Checkout + uses: actions/checkout@v4 + - name: Check if Dashboard files were changed + id: changed + uses: tj-actions/changed-files@v45 + with: + files: | + app/databuk/dashboard/** + build-and-deploy: + uses: ./.github/workflows/dashboard-reusable-workflow.yaml + needs: + - get-changed-files + if: always() && ( github.event_name == 'push' || needs.get-changed-files.outputs.any-changed == 'true' ) + with: + tag: generate + deploy: true + secrets: inherit diff --git a/.github/workflows/dashboard-reusable-workflow.yaml b/.github/workflows/dashboard-reusable-workflow.yaml new file mode 100644 index 00000000..51fea1a4 --- /dev/null +++ b/.github/workflows/dashboard-reusable-workflow.yaml @@ -0,0 +1,176 @@ +name: Dashboard - reusable workflow +on: + workflow_call: + inputs: + tag: + description: The tag to use for the container image + required: false + type: string + default: generate + deploy: + description: Whether to deploy the Helm chart + required: false + type: boolean + default: false +jobs: + get-version-tag: + name: Get version tag + runs-on: ubuntu-latest + outputs: + version-tag: ${{ steps.get_version_tag.outputs.version-tag }} + concurrency: + group: ${{ github.workflow }}-${{ github.ref }}-get-version-tag + cancel-in-progress: true + steps: + - name: Checkout + uses: actions/checkout@v4 + - name: Get version tag + id: get_version_tag + run: | + if [[ ${{ inputs.tag }} == "generate" ]]; then + echo "version-tag=ci-$(git rev-parse --short=7 HEAD)" >> $GITHUB_OUTPUT + else + echo "version-tag=${{ inputs.tag }}" >> $GITHUB_OUTPUT + fi + containerize-backend: + name: Containerize backend + runs-on: ubuntu-latest + container: + image: quay.io/buildah/stable:v1.35.4 + options: --privileged + needs: + - get-version-tag + defaults: + run: + working-directory: app/databuk/dashboard + concurrency: + group: "${{ github.workflow }}-${{ github.ref }}-containerize-backend" + cancel-in-progress: true + steps: + - name: Checkout + uses: actions/checkout@v4 + - name: Containerize + uses: ./.github/actions/containerize + with: + repository: jbrezmorf/zarr-fuse-dashboard-backend + tag: ${{ needs.get-version-tag.outputs.version-tag }} + containerfile-path: oci/Containerfile.backend + push: true + registry-username: ${{ vars.DOCKER_USERNAME }} + registry-password: ${{ secrets.DOCKER_PASSWORD }} + working-directory: app/databuk/dashboard + build-frontend: + name: Build frontend + runs-on: ubuntu-latest + container: + image: docker.io/node:24.8.0-trixie-slim + needs: + - get-version-tag + defaults: + run: + working-directory: app/databuk/dashboard + concurrency: + group: "${{ github.workflow }}-${{ github.ref }}-build-frontend" + cancel-in-progress: true + steps: + - name: Checkout + uses: actions/checkout@v4 + - name: Install dependencies + run: npm ci + - name: Build frontend + env: + VITE_API_URL: "https://zarr-fuse-dashboard.dyn.cloud.e-infra.cz" + run: npm run build + - name: Upload artifact + uses: actions/upload-artifact@v4 + with: + name: dashboard-frontend + path: app/databuk/dashboard/dist + if-no-files-found: error + containerize-frontend: + name: Containerize frontend + runs-on: ubuntu-latest + container: + image: quay.io/buildah/stable:v1.35.4 + options: --privileged + needs: + - get-version-tag + - build-frontend + defaults: + run: + working-directory: app/databuk/dashboard + concurrency: + group: "${{ github.workflow }}-${{ github.ref }}-containerize-frontend" + cancel-in-progress: true + steps: + - name: Checkout + uses: actions/checkout@v4 + - name: Download artifact + uses: actions/download-artifact@v4 + with: + name: dashboard-frontend + path: app/databuk/dashboard/dist + - name: Containerize + uses: ./.github/actions/containerize + with: + repository: jbrezmorf/zarr-fuse-dashboard-frontend + tag: ${{ needs.get-version-tag.outputs.version-tag }} + containerfile-path: oci/Containerfile.frontend + push: true + registry-username: ${{ vars.DOCKER_USERNAME }} + registry-password: ${{ secrets.DOCKER_PASSWORD }} + working-directory: app/databuk/dashboard + lint-helm-chart: + name: Lint dashboard Helm chart + runs-on: ubuntu-latest + container: + image: docker.io/alpine/k8s:1.29.14 + defaults: + run: + working-directory: app/databuk/dashboard/charts/dashboard + concurrency: + group: "${{ github.workflow }}-${{ github.ref }}-lint-helm-chart" + cancel-in-progress: true + steps: + - name: Checkout + uses: actions/checkout@v4 + - name: Lint helm chart + uses: ./.github/actions/helm-lint + with: + working-directory: app/databuk/dashboard/charts/dashboard + deploy: + name: Deploy dashboard to e-infra rancher + runs-on: ubuntu-latest + if: ${{ inputs.deploy }} + container: + image: docker.io/alpine/k8s:1.29.14 + needs: + - lint-helm-chart + - get-version-tag + - containerize-backend + - containerize-frontend + env: + KUBECONFIG: ./kubeconfig.yaml + defaults: + run: + working-directory: app/databuk/dashboard/charts + concurrency: + group: "${{ github.workflow }}-${{ github.ref }}-deploy" + cancel-in-progress: false + steps: + - name: Checkout + uses: actions/checkout@v4 + - name: Decode kubeconfig + run: echo "${{ secrets.KUBECONFIG }}" | base64 -d > kubeconfig.yaml && chmod 600 kubeconfig.yaml + - name: Ensure that the namespace exists + run: kubectl create namespace --dry-run=client -o yaml zarr-fuse-dashboard + - name: Set context + run: kubectl config set-context --current --namespace=zarr-fuse-dashboard + - name: Deploy app + run: | + helm upgrade dashboard dashboard \ + --install --atomic --timeout 10m --namespace zarr-fuse-dashboard \ + --set backend.image.tag="${{ needs.get-version-tag.outputs.version-tag }}" \ + --set frontend.image.tag="${{ needs.get-version-tag.outputs.version-tag }}" \ + --set backend.secrets.s3.accessKey="${{ secrets.S3_ACCESS_KEY }}" \ + --set backend.secrets.s3.secretKey="${{ secrets.S3_SECRET_KEY }}" diff --git a/.github/workflows/ingress-server-pull-request.yaml b/.github/workflows/ingress-server-pull-request.yaml index 00ef6908..63e529ba 100644 --- a/.github/workflows/ingress-server-pull-request.yaml +++ b/.github/workflows/ingress-server-pull-request.yaml @@ -2,7 +2,7 @@ name: Ingress server - pull request on: pull_request: branches: - - "*" + - "**" jobs: get-changed-files: name: Get changed file @@ -10,7 +10,7 @@ jobs: outputs: any-changed: ${{ steps.changed.outputs.any_changed }} concurrency: - group: ${{ github.head_ref }}-${{ github.ref_name }}-get-changed-files + group: ${{ github.workflow }}-${{ github.ref }}-get-changed-files cancel-in-progress: true steps: - name: Checkout @@ -20,7 +20,6 @@ jobs: uses: tj-actions/changed-files@v45 with: files: | - charts/ingress-server/** app/databuk/ingress_server/** build: name: Build and deploy ingress server @@ -29,8 +28,7 @@ jobs: if: ${{ needs.get-changed-files.outputs.any-changed }} == 'true' uses: ./.github/workflows/ingress-server-reusable-workflow.yaml with: - push-container: true - deploy-helm-chart: true + deploy: true tag: generate namespace: ingress-server-development release-name: ingress-server-development diff --git a/.github/workflows/ingress-server-push-main.yaml b/.github/workflows/ingress-server-push-main.yaml index e7377a3f..d0650310 100644 --- a/.github/workflows/ingress-server-push-main.yaml +++ b/.github/workflows/ingress-server-push-main.yaml @@ -11,7 +11,7 @@ jobs: outputs: any-changed: ${{ steps.changed.outputs.any_changed }} concurrency: - group: ${{ github.head_ref }}-${{ github.ref_name }}-get-changed-files + group: ${{ github.workflow }}-${{ github.ref }}-get-changed-files cancel-in-progress: true steps: - name: Checkout @@ -26,10 +26,9 @@ jobs: uses: ./.github/workflows/ingress-server-reusable-workflow.yaml needs: - get-changed-files - if: always() && github.event_name == 'push' || needs.get-changed-files.outputs.any-changed == 'true' + if: always() && ( github.event_name == 'push' || needs.get-changed-files.outputs.any-changed == 'true' ) with: - push-container: true - deploy-helm-chart: true + deploy: true tag: generate namespace: ingress-server-latest release-name: ingress-server-latest diff --git a/.github/workflows/ingress-server-push-tag.yaml b/.github/workflows/ingress-server-push-tag.yaml index a9e1fd2e..ea8f7109 100644 --- a/.github/workflows/ingress-server-push-tag.yaml +++ b/.github/workflows/ingress-server-push-tag.yaml @@ -9,6 +9,9 @@ jobs: runs-on: ubuntu-latest outputs: version: ${{ steps.get-version.outputs.version }} + concurrency: + group: ${{ github.workflow }}-${{ github.ref }}-get-changed-files + cancel-in-progress: true steps: - name: Checkout uses: actions/checkout@v4 @@ -23,8 +26,7 @@ jobs: - get-version if: needs.get-version.outputs.version != '' with: - push-container: true - deploy-helm-chart: true + deploy: true tag: ${{ needs.get-version.outputs.version }} namespace: ingress-server release-name: ingress-server diff --git a/.github/workflows/ingress-server-reusable-workflow.yaml b/.github/workflows/ingress-server-reusable-workflow.yaml index 6690bbf0..ca3ee2f8 100644 --- a/.github/workflows/ingress-server-reusable-workflow.yaml +++ b/.github/workflows/ingress-server-reusable-workflow.yaml @@ -2,12 +2,7 @@ name: Ingress server - reusable workflow on: workflow_call: inputs: - push-container: - description: Whether to push the container image - required: false - type: boolean - default: false - deploy-helm-chart: + deploy: description: Whether to deploy the Helm chart required: false type: boolean @@ -29,9 +24,6 @@ on: description: The S3 store URL (e.g., s3://bucket-name/path/to/store.zarr) required: true type: string -env: - repository: jbrezmorf/zarr-fuse-ingress-server - registry: docker.io jobs: get-version-tag: name: Get version tag @@ -39,7 +31,7 @@ jobs: outputs: version-tag: ${{ steps.get_version_tag.outputs.version-tag }} concurrency: - group: ${{ github.head_ref }}-${{ github.ref_name }}-get-version-tag + group: ${{ github.workflow }}-${{ github.ref }}-get-version-tag cancel-in-progress: true steps: - name: Checkout @@ -69,24 +61,22 @@ jobs: steps: - name: Checkout uses: actions/checkout@v4 - - name: Login to registry - if: ${{ inputs.push-container }} - run: buildah login -u ${{ vars.DOCKER_USERNAME }} -p "${{ secrets.DOCKER_PASSWORD }}" ${{ env.registry }} - - name: Build container file - run: | - buildah build -t ${{ env.registry }}/${{ env.repository }}:${{ needs.get-version-tag.outputs.version-tag }} \ - --build-arg APP_VERSION="${{ needs.get-version-tag.outputs.version-tag }}" \ - -f oci/Containerfile . - - name: Push container image - if: ${{ inputs.push-container }} - run: | - buildah push ${{ env.registry }}/${{ env.repository }}:${{ needs.get-version-tag.outputs.version-tag }} docker://${{ env.registry }}/${{ env.repository }}:${{ needs.get-version-tag.outputs.version-tag }} - buildah logout ${{ env.registry }} + - name: Containerize + uses: ./.github/actions/containerize + with: + repository: jbrezmorf/zarr-fuse-ingress-server + tag: ${{ needs.get-version-tag.outputs.version-tag }} + containerfile-path: oci/Containerfile + push: true + registry-username: ${{ vars.DOCKER_USERNAME }} + registry-password: ${{ secrets.DOCKER_PASSWORD }} + working-directory: app/databuk/ingress_server + extra-build-args: --build-arg APP_VERSION="${{ needs.get-version-tag.outputs.version-tag }}" lint-helm-chart: name: Lint ingress server Helm chart runs-on: ubuntu-latest container: - image: alpine/k8s:1.29.14 + image: docker.io/alpine/k8s:1.29.14 needs: - containerize defaults: @@ -99,15 +89,16 @@ jobs: - name: Checkout uses: actions/checkout@v4 - name: Lint helm chart - run: helm lint --values values/minimal-required-values.yaml --strict > /dev/null - - name: Template helm chart - run: helm template ingress-server . --values values/minimal-required-values.yaml > /dev/null - deploy-helm-chart: + uses: ./.github/actions/helm-lint + with: + working-directory: app/databuk/ingress_server/charts/ingress-server + values: --values values/minimal-required-values.yaml + deploy: name: Deploy ingress server to e-infra rancher runs-on: ubuntu-latest - if: ${{ inputs.deploy-helm-chart }} + if: ${{ inputs.deploy }} container: - image: alpine/k8s:1.29.14 + image: docker.io/alpine/k8s:1.29.14 needs: - lint-helm-chart - get-version-tag @@ -117,8 +108,8 @@ jobs: run: working-directory: app/databuk/ingress_server/charts concurrency: - group: "${{ github.workflow }}-${{ github.ref }}-deploy-helm-chart" - cancel-in-progress: true + group: "${{ github.workflow }}-${{ github.ref }}-deploy" + cancel-in-progress: false steps: - name: Checkout uses: actions/checkout@v4 diff --git a/.gitignore b/.gitignore index 88798a8b..bb9b0eff 100644 --- a/.gitignore +++ b/.gitignore @@ -182,3 +182,25 @@ cython_debug/ # PyPI configuration file .pypirc + + +# Dashboard +app/databuk/dashboard/node_modules/ +app/databuk/dashboard/dist/ +app/databuk/dashboard/.vite/ +app/databuk/dashboard/.eslintcache +app/databuk/dashboard/.env +app/databuk/dashboard/.env.local +app/databuk/dashboard/npm-debug.log* +app/databuk/dashboard/yarn-error.log* +app/databuk/dashboard/pnpm-debug.log* +app/databuk/dashboard/.DS_Store +app/databuk/dashboard/Thumbs.db +app/databuk/dashboard/dist-ssr/ +app/databuk/dashboard/*.local +app/databuk/dashboard/.vscode/* +!app/databuk/dashboard/.vscode/extensions.json + +# Dashboard backend virtual environment +app/databuk/dashboard/backend/venv/ +app/databuk/dashboard/backend/.env diff --git a/app/databuk/dashboard/.env.development b/app/databuk/dashboard/.env.development new file mode 100644 index 00000000..5934e2e7 --- /dev/null +++ b/app/databuk/dashboard/.env.development @@ -0,0 +1 @@ +VITE_API_URL=http://localhost:8000 diff --git a/app/databuk/dashboard/.gitignore b/app/databuk/dashboard/.gitignore new file mode 100644 index 00000000..a547bf36 --- /dev/null +++ b/app/databuk/dashboard/.gitignore @@ -0,0 +1,24 @@ +# Logs +logs +*.log +npm-debug.log* +yarn-debug.log* +yarn-error.log* +pnpm-debug.log* +lerna-debug.log* + +node_modules +dist +dist-ssr +*.local + +# Editor directories and files +.vscode/* +!.vscode/extensions.json +.idea +.DS_Store +*.suo +*.ntvs* +*.njsproj +*.sln +*.sw? diff --git a/app/databuk/dashboard/README.md b/app/databuk/dashboard/README.md new file mode 100644 index 00000000..a47b7106 --- /dev/null +++ b/app/databuk/dashboard/README.md @@ -0,0 +1,252 @@ +# ZARR FUSE Dashboard + +A modern, interactive dashboard for exploring Zarr stores on S3 with real-time data visualization. Built with React, TypeScript, FastAPI, and designed for generic Zarr store structures. + +## Features + +- **Generic S3 Zarr Store Support**: Works with any S3-hosted Zarr store structure +- **Interactive Tree Explorer**: Navigate through hierarchical Zarr groups and arrays +- **Variable Data Viewer**: Accordion-style variable display with sample data +- **Real-time Store Connection**: Live S3 connection with status indicators +- **Progress Bar & Auto-reload**: Configurable reload intervals with visual progress +- **Error Handling**: Comprehensive error display and debugging +- **YAML Configuration**: Flexible endpoint configuration via YAML files +- **Responsive Design**: Modern UI with Tailwind CSS + +## Architecture + +### Frontend (React + TypeScript) +``` +src/ +├── components/ +│ ├── sidebar/ # Store navigation and tree view +│ └── App.tsx # Main application with variable display +├── types/ # TypeScript type definitions +└── index.css # Tailwind CSS styles +``` + +### Backend (FastAPI + Python) +``` +backend/ +├── services/ +│ └── s3_service.py # Core S3 and Zarr operations +├── routers/ +│ ├── s3.py # S3 API endpoints +│ ├── logs.py # Logs endpoint +│ └── config.py # Configuration management +├── core/ +│ ├── config_manager.py # YAML configuration handling +│ └── config.py # Settings (loads backend/.env) +├── config/ +│ └── endpoints.yaml # S3 endpoint configuration +├── pyproject.toml # Backend packaging and deps +├── env.example # Example env (copy to .env) +└── main.py # FastAPI application +``` + +## Quick Start + +### Prerequisites +- **Python 3.8+** with zarr_fuse library installed +- **Node.js 18+** and npm +- **S3 credentials** and access to Zarr stores + +### 1. Environment Setup +```bash +# Clone repository +git clone +cd zarr_fuse/app/databuk/dashboard + +npm install +``` + +### 2. Backend Setup +```powershell +cd backend +python -m venv venv +.\venv\Scripts\Activate.ps1 +pip install -e .[dev] +``` + +### 3. Configuration + +Create `.env` file in `backend/` (copy from `backend/env.example`): +```ini +# S3 Configuration (placeholders) +S3_BUCKET_NAME=your_bucket_name +S3_ACCESS_KEY=your_access_key_here +S3_SECRET_KEY=your_secret_key_here +S3_ENDPOINT_URL=https://s3.example.com +S3_ADDRESSING_STYLE=path +``` + +Configure `backend/config/endpoints.yaml`: +```yaml +"your_endpoint_name": + Reload_interval: 300 # seconds + Schema_file: "schemas/your_schema.yaml" + STORE_URL: "s3://${S3_BUCKET_NAME}/path/to/your/store.zarr" + S3_ENDPOINT_URL: "${S3_ENDPOINT_URL}" + S3_access_key: "${S3_ACCESS_KEY}" + S3_secret_key: "${S3_SECRET_KEY}" + S3_region: "us-east-1" + S3_use_ssl: true + S3_verify_ssl: true + Description: "Your store description" + Store_type: "zarr" + Version: "1.0.0" +``` + +### 4. Run Application +```powershell +# Terminal 1: Start backend +cd backend +python run.py + +# Terminal 2: Start frontend +cd .. # back to dashboard root +npm run dev +``` + +Access at: +- **Frontend**: http://localhost:5173 +- **Backend API**: http://localhost:8000 +- **API Docs**: http://localhost:8000/docs + +## Usage + +### Store Navigation +1. **Store Name**: Click store name to view root-level variables +2. **Groups**: Click group names to view nested variables +3. **Variables**: Click variables to expand and view data details + +### Status Indicators +- **Green**: Store connected and operational +- **Yellow**: Loading or connecting +- **Red**: Connection error or issues + +### Progress Bar +- Shows time since last reload +- Click to force immediate reload +- Auto-reloads based on `Reload_interval` + +## Supported Store Structures + +### Tree Structure +``` +store.zarr/ +├── root variables (temperature, time, etc.) +├── child_1/ +│ ├── variables +│ └── child_3/ +│ └── variables +└── child_2/ + └── variables +``` + +### Weather Structure (yr.no style) +``` +store.zarr/ +├── root variables (lat, lon, etc.) +└── yr.no/ + ├── air_pressure + ├── temperature + └── other weather variables +``` + +### Generic Structure +Works with any Zarr group/array hierarchy! + +## API Endpoints + +### Configuration +- `GET /api/config/endpoints` - Get all endpoints + +### S3 Operations +- `GET /api/s3/structure` - Get store structure +- `GET /api/s3/node/{store_name}/{node_path}` - Get node details +- `GET /api/s3/variable/{store_name}/{variable_path}` - Get variable data +- `GET /api/s3/status` - Get S3 connection status + +## Development + +### Code Structure +- **Generic S3 handling**: Works with any Zarr store structure +- **Error resilient**: Comprehensive error handling and display +- **Configurable**: YAML-based configuration system +- **Scalable**: Clean separation of concerns + +### Key Components +- **S3Service**: Core S3 and Zarr operations +- **ConfigManager**: YAML configuration management +- **Sidebar**: Store navigation and status display +- **App**: Main application with variable viewer + +### Testing Different Stores +1. Update `STORE_URL` in `endpoints.yaml` +2. Restart backend +3. Frontend automatically adapts to new structure + +## Recent Improvements + +### Completed Features +- Generic Zarr store support (any structure) +- Root prefix handling (Zarr-native paths) +- NaN value JSON serialization +- Accordion-style variable display +- Store-level clickable navigation +- Code cleanup and refactoring +- Multi-store testing capability + +### Current Status +- Fully functional with multiple store types +- Clean, maintainable codebase +- Ready for production use + +## Troubleshooting + +### Common Issues + +**S3 Connection Errors:** +- Verify credentials in `.env` +- Check S3 endpoint URL +- Ensure bucket/store exists + +**Backend Won't Start:** +- Check if zarr_fuse is installed: `pip list | grep zarr` +- Verify port 8000 is available +- Check Python version (3.8+) + +**Frontend Issues:** +- Clear npm cache: `npm cache clean --force` +- Reinstall dependencies: `rm -rf node_modules && npm install` +- Check Node.js version (18+) + +**Store Structure Issues:** +- Verify store is valid Zarr format +- Check S3 permissions +- Try different STORE_URL paths + +## File Locations + +### Configuration +- **S3 Credentials**: `backend/.env` +- **Endpoint Config**: `backend/config/endpoints.yaml` +- **Dependencies**: `backend/pyproject.toml`, `package.json` + +### Core Files +- **Main App**: `src/App.tsx` +- **Sidebar**: `src/components/sidebar/Sidebar.tsx` +- **S3 Service**: `backend/services/s3_service.py` +- **API Routes**: `backend/routers/s3.py` + +## Contributing + +1. Follow existing code patterns +2. Test with multiple store structures +3. Update documentation +4. Ensure error handling is comprehensive + +--- + +**Built for the Zarr community** \ No newline at end of file diff --git a/app/databuk/dashboard/backend/.gitignore b/app/databuk/dashboard/backend/.gitignore new file mode 100644 index 00000000..da9416d1 --- /dev/null +++ b/app/databuk/dashboard/backend/.gitignore @@ -0,0 +1,6 @@ +venv/ +.env +dist/ +build/ +*.egg-info/ +__pycache__/ diff --git a/app/databuk/dashboard/backend/README.md b/app/databuk/dashboard/backend/README.md new file mode 100644 index 00000000..c8afecbd --- /dev/null +++ b/app/databuk/dashboard/backend/README.md @@ -0,0 +1,96 @@ +# ZARR FUSE Dashboard Backend + +Modular FastAPI backend for exploring Zarr stores on S3. Now packaged as a standalone Python project with its own `pyproject.toml` and `.env` inside `backend/`. + +## Architecture + +``` +backend/ +├── core/ # Configuration and utilities +├── services/ # Business logic (Zarr operations) +├── routers/ # HTTP API endpoints (s3, logs, config) +├── config/ # YAML endpoint configs (endpoints.yaml) +├── main.py # FastAPI application +├── run.py # Server startup script +├── pyproject.toml # Packaging and dependencies +└── env.example # Example env vars (copy to .env) +``` + +## Setup + +1. Create and activate a virtual environment (Windows PowerShell): + ```powershell + cd app/databuk/dashboard/backend + python -m venv venv + .\venv\Scripts\Activate.ps1 + ``` + +2. Install package (editable) with dev extras: + ```powershell + pip install -e .[dev] + ``` + +3. Configure environment variables: + - Copy `env.example` to `.env` + - Fill `S3_ACCESS_KEY`, `S3_SECRET_KEY`, `S3_ENDPOINT_URL`, `S3_BUCKET_NAME`, etc. + +4. Run the server: + ```powershell + python run.py + ``` + Or directly with uvicorn: + ```powershell + uvicorn main:app --reload --host 0.0.0.0 --port 8000 + ``` + +## API Endpoints + +### Configuration +- `GET /api/config/endpoints` - List configured endpoints + +### S3 Operations +- `GET /api/s3/status` - Connection status +- `GET /api/s3/structure` - Current store structure +- `GET /api/s3/node/{store_name}/{node_path}` - Node details +- `GET /api/s3/variable/{store_name}/{variable_path}` - Variable data + +### Logs +- `GET /api/logs` - Backend warnings and errors from latest log + +### Health & Info +- `GET /` - API information +- `GET /health` - Health check +- `GET /docs` - Swagger UI + +## Configuration + +Environment variables are loaded only from `backend/.env`. + +- `.env`: S3 credentials and settings (see `env.example`) +- `config/endpoints.yaml`: defines STORE_URL and S3 options per endpoint +- CORS: enabled for `http://localhost:5173` + +## Data Flow + +1. S3Service: Opens and explores Zarr stores from S3 +2. S3Router: Exposes HTTP endpoints for S3 operations +3. LogsRouter: Exposes backend logs to the UI +4. Frontend: Consumes data for tree and variable views + +## Testing + +```powershell +# Health +curl http://localhost:8000/health + +# Structure +curl http://localhost:8000/api/s3/structure + +# Logs +curl http://localhost:8000/api/logs +``` + +## Notes + +- NaN/Infinity are serialized as strings for JSON compliance +- Uses Zarr FsspecStore and list_dir for S3-backed stores diff --git a/app/databuk/dashboard/backend/__init__.py b/app/databuk/dashboard/backend/__init__.py new file mode 100644 index 00000000..9c8f0df2 --- /dev/null +++ b/app/databuk/dashboard/backend/__init__.py @@ -0,0 +1 @@ +# Backend package for ZARR FUSE Dashboard diff --git a/app/databuk/dashboard/backend/config/endpoints.yaml b/app/databuk/dashboard/backend/config/endpoints.yaml new file mode 100644 index 00000000..adce7727 --- /dev/null +++ b/app/databuk/dashboard/backend/config/endpoints.yaml @@ -0,0 +1,39 @@ +# S3 Endpoint Configuration +# Single endpoint configuration (expandable to multiple endpoints) + +"test_s3_endpoint": + # Reload settings + Reload_interval: 300 # 5 minutes in seconds + + # Feature flag for zarr_fuse integration + Use_zarr_fuse: true + + # Schema configuration + Schema_file: "schemas/test_schema.yaml" + + # S3 Store configuration - Using new credentials + STORE_URL: "s3://${S3_BUCKET_NAME}/dashboard-test/structure_tree.zarr" + + S3_ENDPOINT_URL: "${S3_ENDPOINT_URL}" + S3_access_key: "${S3_ACCESS_KEY}" + S3_secret_key: "${S3_SECRET_KEY}" + + # Additional Zarr FUSE settings + S3_region: "us-east-1" + S3_use_ssl: true + S3_verify_ssl: true + + # Store metadata + Description: "Surface Zarr store with weather data (CESNET)" + Store_type: "zarr" + Version: "1.0.0" +# Example for multiple endpoints (commented for future use) +# "production_s3_endpoint": +# Reload_interval: 600 +# Schema_file: "schemas/production_schema.yaml" +# STORE_URL: "s3://prod-bucket/zarr-data" +# S3_ENDPOINT_URL: "https://s3.amazonaws.com" +# S3_access_key: "${PROD_S3_ACCESS_KEY}" +# S3_secret_key: "${PROD_S3_SECRET_KEY}" +# S3_region: "us-west-2" +# Description: "Production S3 endpoint" diff --git a/app/databuk/dashboard/backend/core/__init__.py b/app/databuk/dashboard/backend/core/__init__.py new file mode 100644 index 00000000..fa7eabcb --- /dev/null +++ b/app/databuk/dashboard/backend/core/__init__.py @@ -0,0 +1 @@ +# Core configuration and utilities diff --git a/app/databuk/dashboard/backend/core/config.py b/app/databuk/dashboard/backend/core/config.py new file mode 100644 index 00000000..ec99d313 --- /dev/null +++ b/app/databuk/dashboard/backend/core/config.py @@ -0,0 +1,38 @@ +import os +from pathlib import Path +from typing import Optional +from dotenv import load_dotenv + +CURRENT_DIR = Path(__file__).resolve().parent.parent # points to backend/ + +# Strictly load only backend-local .env (no fallback to repo root) +BACKEND_ENV_PATH = CURRENT_DIR / ".env" +if BACKEND_ENV_PATH.exists(): + load_dotenv(BACKEND_ENV_PATH) + + +class Settings: + """Backend configuration settings.""" + + # Base paths - Fix the path calculation + # Backend is in: app/databuk/dashboard/backend/ + # Need to go up to: zarr_fuse/ (project root) + PROJECT_ROOT = Path(__file__).parent.parent.parent.parent.parent.parent + TEST_STORES_DIR = PROJECT_ROOT / "zarr_fuse" / "test" / "workdir" + LOGS_DIR = PROJECT_ROOT / "log_store.zarr" / "logs" + + # API settings + API_V1_STR: str = "/api" + PROJECT_NAME: str = "ZARR FUSE Dashboard API" + VERSION: str = "1.0.0" + + # CORS settings + BACKEND_CORS_ORIGINS: list[str] = [ + "http://localhost:5173", # Vite dev server + "http://localhost:3000", # Alternative dev port + ] + + # Feature flags + ENABLE_TEST_STORES: bool = True + +settings = Settings() diff --git a/app/databuk/dashboard/backend/core/config_manager.py b/app/databuk/dashboard/backend/core/config_manager.py new file mode 100644 index 00000000..47f7441c --- /dev/null +++ b/app/databuk/dashboard/backend/core/config_manager.py @@ -0,0 +1,117 @@ +import yaml +import os +from pathlib import Path +from typing import Dict, Any, Optional +from pydantic import BaseModel, Field + +class EndpointConfig(BaseModel): + """Pydantic model for endpoint configuration validation""" + Reload_interval: int = Field(..., gt=0, description="Reload interval in seconds") + Schema_file: str = Field(..., description="Path to schema file") + STORE_URL: str = Field(..., description="S3 store URL") + S3_ENDPOINT_URL: str = Field(..., description="S3 endpoint URL") + S3_access_key: str = Field(..., description="S3 access key") + S3_secret_key: str = Field(..., description="S3 secret key") + S3_region: Optional[str] = Field(default="us-east-1", description="S3 region") + S3_use_ssl: bool = Field(default=True, description="Use SSL for S3") + S3_verify_ssl: bool = Field(default=True, description="Verify SSL for S3") + Description: str = Field(..., description="Endpoint description") + Store_type: str = Field(default="zarr", description="Store type") + Version: str = Field(default="1.0.0", description="Version") + Use_zarr_fuse: bool = Field(default=False, description="Enable zarr_fuse integration") + +class ConfigManager: + """Manages YAML configuration for S3 endpoints""" + + def __init__(self, config_path: Optional[str] = None): + if config_path is None: + # Default to backend/config/endpoints.yaml + self.config_path = Path(__file__).parent.parent / "config" / "endpoints.yaml" + else: + self.config_path = Path(config_path) + + self._config_cache: Optional[Dict[str, Any]] = None + self._endpoints_cache: Optional[Dict[str, EndpointConfig]] = None + + def load_config(self) -> Dict[str, Any]: + """Load YAML configuration file""" + if self._config_cache is not None: + return self._config_cache + + if not self.config_path.exists(): + raise FileNotFoundError(f"Configuration file not found: {self.config_path}") + + try: + with open(self.config_path, 'r', encoding='utf-8') as file: + config = yaml.safe_load(file) + self._config_cache = config + return config + except yaml.YAMLError as e: + raise ValueError(f"Invalid YAML format: {e}") + except Exception as e: + raise RuntimeError(f"Failed to load configuration: {e}") + + def get_endpoints(self) -> Dict[str, EndpointConfig]: + """Get all endpoints with validation""" + if self._endpoints_cache is not None: + return self._endpoints_cache + + config = self.load_config() + endpoints = {} + + for endpoint_name, endpoint_data in config.items(): + if endpoint_name.startswith('#'): # Skip comments + continue + try: + # Replace environment variables + processed_data = self._process_environment_variables(endpoint_data) + endpoint_config = EndpointConfig(**processed_data) + endpoints[endpoint_name] = endpoint_config + except Exception as e: + print(f"Warning: Invalid configuration for endpoint '{endpoint_name}': {e}") + + self._endpoints_cache = endpoints + return endpoints + + def _process_environment_variables(self, data: Dict[str, Any]) -> Dict[str, Any]: + """Process environment variables in configuration data""" + processed = {} + for key, value in data.items(): + if isinstance(value, str): + # Replace all environment variables in the string + processed_value = value + while "${" in processed_value and "}" in processed_value: + start = processed_value.find("${") + end = processed_value.find("}", start) + if start != -1 and end != -1: + env_var = processed_value[start+2:end] + env_value = os.getenv(env_var) + print(f"Processing env var: {env_var} = {env_value}") + if env_value is None: + raise ValueError(f"Environment variable {env_var} not found") + processed_value = processed_value.replace(f"${{{env_var}}}", env_value) + processed[key] = processed_value + else: + processed[key] = value + return processed + + def get_endpoint(self, endpoint_name: str) -> Optional[EndpointConfig]: + """Get specific endpoint configuration""" + endpoints = self.get_endpoints() + return endpoints.get(endpoint_name) + + def get_first_endpoint(self) -> Optional[EndpointConfig]: + """Get the first available endpoint (for single endpoint mode)""" + endpoints = self.get_endpoints() + if endpoints: + return list(endpoints.values())[0] + return None + + def reload_config(self): + """Reload configuration from file""" + self._config_cache = None + self._endpoints_cache = None + return self.load_config() + +# Global config manager instance +config_manager = ConfigManager() diff --git a/app/databuk/dashboard/backend/env.example b/app/databuk/dashboard/backend/env.example new file mode 100644 index 00000000..7b0fd14b --- /dev/null +++ b/app/databuk/dashboard/backend/env.example @@ -0,0 +1,43 @@ +# S3 Configuration +# Copy this file to .env and fill in your actual credentials +# Contact project maintainers for access credentials + +S3_BUCKET_NAME=hlavo-release +S3_ACCESS_KEY=your_access_key_here +S3_SECRET_KEY=your_secret_key_here +S3_ENDPOINT_URL=https://s3.cl4.du.cesnet.cz +S3_ADDRESSING_STYLE=path + +#-------------------------------------------------------------------------------------------------------------------------------------------# +# Alternative Bucket: test-zarr-storage +# S3_BUCKET_NAME=test-zarr-storage +# S3_ACCESS_KEY=your_test_access_key_here +# S3_SECRET_KEY=your_test_secret_key_here + +# Store URLs to test +# Test tree structure (child_1, child_2, child_3) +#STORE_URL: "s3://${S3_BUCKET_NAME}/dashboard-test/structure_tree.zarr" + +# Python 3.11 tree +#STORE_URL: "s3://${S3_BUCKET_NAME}/py311/structure_tree.zarr" + +# Python 3.12 tree +#STORE_URL: "s3://${S3_BUCKET_NAME}/py312/structure_tree.zarr" + +# Python 3.13 tree +#STORE_URL: "s3://${S3_BUCKET_NAME}/py313/structure_tree.zarr" + +# Python 3.11 weather (lat/lon/temp data) +#STORE_URL: "s3://${S3_BUCKET_NAME}/py311/structure_weather.zarr" + +# Python 3.12 weather (currently tested) +#STORE_URL: "s3://${S3_BUCKET_NAME}/py312/structure_weather.zarr" + +# Python 3.13 weather +#STORE_URL: "s3://${S3_BUCKET_NAME}/py313/structure_weather.zarr" + +#-------------------------------------------------------------------------------------------------------------------------------------------# +# hlavo-release bucket store URLs +#STORE_URL: "s3://${S3_BUCKET_NAME}/surface.zarr" +#STORE_URL: "s3://${S3_BUCKET_NAME}/dashboard-test/structure_tree.zarr" +#STORE_URL: "s3://${S3_BUCKET_NAME}/hlavo-release" \ No newline at end of file diff --git a/app/databuk/dashboard/backend/main.py b/app/databuk/dashboard/backend/main.py new file mode 100644 index 00000000..175f9c6d --- /dev/null +++ b/app/databuk/dashboard/backend/main.py @@ -0,0 +1,69 @@ +from fastapi import FastAPI +from fastapi.middleware.cors import CORSMiddleware +from contextlib import asynccontextmanager +from pathlib import Path + +# Use absolute imports +from core.config import settings +from routers import config, s3 +from routers import logs + +@asynccontextmanager +async def lifespan(app: FastAPI): + """Application lifespan events.""" + # Startup + print(f"Starting {settings.PROJECT_NAME} v{settings.VERSION}") + print(f"Test stores directory: {settings.TEST_STORES_DIR}") + + yield + + # Shutdown + print(f"Shutting down {settings.PROJECT_NAME}") + +# Create FastAPI app +app = FastAPI( + title=settings.PROJECT_NAME, + version=settings.VERSION, + description="API for exploring Zarr stores", + lifespan=lifespan +) + +# Add CORS middleware +app.add_middleware( + CORSMiddleware, + allow_origins=settings.BACKEND_CORS_ORIGINS, + allow_credentials=True, + allow_methods=["*"], + allow_headers=["*"], +) + +# Include routers +app.include_router(config.router, prefix=settings.API_V1_STR) +app.include_router(s3.router, prefix=settings.API_V1_STR) +app.include_router(logs.router, prefix=settings.API_V1_STR) + +@app.get("/") +async def root(): + """Root endpoint with API information.""" + return { + "message": f"Welcome to {settings.PROJECT_NAME}", + "version": settings.VERSION, + "docs": "/docs", + "redoc": "/redoc", + "api_prefix": settings.API_V1_STR + } + +@app.get("/health") +async def health_check(): + """Health check endpoint.""" + return {"status": "healthy", "service": settings.PROJECT_NAME} + +if __name__ == "__main__": + import uvicorn + uvicorn.run( + "main:app", + host="0.0.0.0", + port=8000, + reload=True, + log_level="info" + ) diff --git a/app/databuk/dashboard/backend/pyproject.toml b/app/databuk/dashboard/backend/pyproject.toml new file mode 100644 index 00000000..8bf008a9 --- /dev/null +++ b/app/databuk/dashboard/backend/pyproject.toml @@ -0,0 +1,51 @@ +[build-system] +requires = ["setuptools>=61", "wheel"] +build-backend = "setuptools.build_meta" + +[project] +name = "databuk-dashboard-backend" +version = "0.1.0" +description = "Databuk Dashboard backend (FastAPI) for Zarr store exploration" +readme = "README.md" +requires-python = ">=3.11" +authors = [{ name = "Databuk", email = "dev@example.com" }] + +# S3/Zarr ekosistemi + backend web bağımlılıkları +dependencies = [ + "aiobotocore>=2.18.0", + "PyYAML", + "attrs", + "tzdata", + "numpy", + "scipy", + "polars", + "pint", + "pint-xarray", + "anytree", + "pandas", + "pyarrow", + "seaborn", + "s3fs", + "fsspec", + "zarr", + "dask", + "xarray", + "python-dotenv", + # Backend web: + "fastapi", + "uvicorn[standard]", + "pydantic", +] + +[project.optional-dependencies] +dev = [ + "pytest", + "httpx", + "ruff", + "mypy", +] + +[tool.setuptools.packages.find] +where = ["."] +include = ["core*", "routers*", "services*", "config*", "models*", "*"] +exclude = ["venv*", "node_modules*", "dist*", "build*"] diff --git a/app/databuk/dashboard/backend/routers/__init__.py b/app/databuk/dashboard/backend/routers/__init__.py new file mode 100644 index 00000000..122f9038 --- /dev/null +++ b/app/databuk/dashboard/backend/routers/__init__.py @@ -0,0 +1,2 @@ +# Routers package +from . import config, s3, logs # noqa: F401 diff --git a/app/databuk/dashboard/backend/routers/config.py b/app/databuk/dashboard/backend/routers/config.py new file mode 100644 index 00000000..fdcf70ce --- /dev/null +++ b/app/databuk/dashboard/backend/routers/config.py @@ -0,0 +1,63 @@ +from fastapi import APIRouter, HTTPException +from core.config_manager import config_manager, EndpointConfig +from typing import Dict, Any + +router = APIRouter(prefix="/config", tags=["configuration"]) + +@router.get("/endpoints") +async def get_endpoints() -> Dict[str, Any]: + """Get all configured endpoints""" + try: + endpoints = config_manager.get_endpoints() + return { + "status": "success", + "endpoints": {name: endpoint.dict() for name, endpoint in endpoints.items()} + } + except Exception as e: + raise HTTPException(status_code=500, detail=f"Failed to load endpoints: {str(e)}") + +@router.get("/endpoints/{endpoint_name}") +async def get_endpoint(endpoint_name: str) -> Dict[str, Any]: + """Get specific endpoint configuration""" + try: + endpoint = config_manager.get_endpoint(endpoint_name) + if endpoint is None: + raise HTTPException(status_code=404, detail=f"Endpoint '{endpoint_name}' not found") + + return { + "status": "success", + "endpoint": endpoint.dict() + } + except HTTPException: + raise + except Exception as e: + raise HTTPException(status_code=500, detail=f"Failed to load endpoint: {str(e)}") + +@router.get("/current") +async def get_current_endpoint() -> Dict[str, Any]: + """Get the current (first) endpoint configuration""" + try: + endpoint = config_manager.get_first_endpoint() + if endpoint is None: + raise HTTPException(status_code=404, detail="No endpoints configured") + + return { + "status": "success", + "endpoint": endpoint.dict() + } + except HTTPException: + raise + except Exception as e: + raise HTTPException(status_code=500, detail=f"Failed to load current endpoint: {str(e)}") + +@router.post("/reload") +async def reload_config() -> Dict[str, Any]: + """Reload configuration from file""" + try: + config_manager.reload_config() + return { + "status": "success", + "message": "Configuration reloaded successfully" + } + except Exception as e: + raise HTTPException(status_code=500, detail=f"Failed to reload configuration: {str(e)}") diff --git a/app/databuk/dashboard/backend/routers/logs.py b/app/databuk/dashboard/backend/routers/logs.py new file mode 100644 index 00000000..2c6aebd0 --- /dev/null +++ b/app/databuk/dashboard/backend/routers/logs.py @@ -0,0 +1,67 @@ +from fastapi import APIRouter, HTTPException, Query +from typing import List, Dict, Any +from pathlib import Path +from core.config import settings + +router = APIRouter(prefix="/logs", tags=["logs"]) + + +def _find_latest_log_file(logs_dir: Path) -> Path | None: + if not logs_dir.exists() or not logs_dir.is_dir(): + return None + log_files = sorted(logs_dir.glob("*.log"), reverse=True) + return log_files[0] if log_files else None + + +def _parse_log_line(line: str) -> Dict[str, Any] | None: + # Very simple parser expecting a format like: + # 2025-07-31T12:34:56 level=ERROR message=Something happened + # Adjust as needed to your real log format + line = line.strip() + if not line: + return None + try: + parts = line.split(" ") + timestamp = parts[0] + remainder = " ".join(parts[1:]) + level = "info" + message = remainder + # naive extraction + if "level=" in remainder: + for token in remainder.split(): + if token.lower().startswith("level="): + level = token.split("=", 1)[1].lower() + break + if "message=" in remainder: + message = remainder.split("message=", 1)[1] + return { + "id": f"{timestamp}-{abs(hash(line))}", + "timestamp": timestamp, + "level": "error" if level == "error" else ("warning" if level in ("warn", "warning") else "info"), + "category": "backend", + "message": message, + } + except Exception: + return None + + +@router.get("") +async def get_logs(limit: int = Query(200, ge=1, le=1000)) -> Dict[str, Any]: + """Return recent backend logs filtered to errors and warnings only.""" + try: + latest = _find_latest_log_file(settings.LOGS_DIR) + if latest is None: + return {"status": "success", "logs": []} + + logs: List[Dict[str, Any]] = [] + with latest.open("r", encoding="utf-8", errors="ignore") as f: + for line in f.readlines()[-limit:]: + parsed = _parse_log_line(line) + if parsed and parsed["level"] in ("error", "warning"): + logs.append(parsed) + + return {"status": "success", "logs": logs} + except Exception as e: + raise HTTPException(status_code=500, detail=f"Failed to read logs: {str(e)}") + + diff --git a/app/databuk/dashboard/backend/routers/s3.py b/app/databuk/dashboard/backend/routers/s3.py new file mode 100644 index 00000000..9e396b40 --- /dev/null +++ b/app/databuk/dashboard/backend/routers/s3.py @@ -0,0 +1,90 @@ +from fastapi import APIRouter, HTTPException +from typing import Dict, Any +from services.s3_service import s3_service +from core.config_manager import config_manager + +router = APIRouter(prefix="/s3", tags=["s3"]) + +async def ensure_connected(): + """Ensure S3 service is connected, connect if not""" + if not s3_service._fs: + endpoint_config = config_manager.get_first_endpoint() + if not endpoint_config: + raise HTTPException(status_code=400, detail="No endpoint configuration found") + + success = s3_service.connect(endpoint_config) + if not success: + raise HTTPException(status_code=500, detail="Failed to connect to S3") + +@router.get("/connect") +async def connect_to_s3(): + """Connect to S3 using the current configuration""" + try: + endpoint_config = config_manager.get_first_endpoint() + if not endpoint_config: + raise HTTPException(status_code=400, detail="No endpoint configuration found") + + success = s3_service.connect(endpoint_config) + if not success: + raise HTTPException(status_code=500, detail="Failed to connect to S3") + + return {"status": "success", "message": "Connected to S3 successfully"} + + except Exception as e: + raise HTTPException(status_code=500, detail=f"Connection error: {str(e)}") + +@router.get("/structure") +async def get_store_structure(): + """Get the structure of the Zarr store with sample data""" + try: + await ensure_connected() + structure = s3_service.get_store_structure() + return {"status": "success", "structure": structure} + + except FileNotFoundError as e: + raise HTTPException(status_code=404, detail=f"Store not found: {str(e)}") + except Exception as e: + raise HTTPException(status_code=500, detail=f"Failed to get store structure: {str(e)}") + +@router.get("/node/{store_name}/{node_path:path}") +async def get_node_details(store_name: str, node_path: str): + """Get detailed information about a specific node in a Zarr store""" + try: + await ensure_connected() + node_details = s3_service.get_node_details(store_name, node_path) + return {"status": "success", "node_details": node_details} + + except FileNotFoundError as e: + raise HTTPException(status_code=404, detail=f"Node not found: {str(e)}") + except Exception as e: + raise HTTPException(status_code=500, detail=f"Failed to get node details: {str(e)}") + +@router.get("/status") +async def get_s3_status(): + """Get the current S3 connection status""" + try: + is_connected = s3_service._fs is not None + current_config = s3_service._current_config + + status = { + "connected": is_connected, + "endpoint": current_config.STORE_URL if current_config else None, + "description": current_config.Description if current_config else None + } + + return {"status": "success", "s3_status": status} + + except Exception as e: + raise HTTPException(status_code=500, detail=f"Failed to get S3 status: {str(e)}") + +@router.get("/variable/{store_name}/{variable_path:path}") +async def get_variable_data(store_name: str, variable_path: str): + """Get data for a specific variable""" + try: + await ensure_connected() + variable_data = s3_service.get_variable_data(store_name, variable_path) + return variable_data + except FileNotFoundError as e: + raise HTTPException(status_code=404, detail=f"Variable not found: {str(e)}") + except Exception as e: + raise HTTPException(status_code=500, detail=f"Failed to get variable data: {str(e)}") \ No newline at end of file diff --git a/app/databuk/dashboard/backend/run.py b/app/databuk/dashboard/backend/run.py new file mode 100644 index 00000000..8450b7d6 --- /dev/null +++ b/app/databuk/dashboard/backend/run.py @@ -0,0 +1,30 @@ +#!/usr/bin/env python3 +""" +Simple script to run the ZARR FUSE Dashboard backend. +""" + +import uvicorn +import sys +from pathlib import Path + +# Add the backend directory to Python path +backend_dir = Path(__file__).parent +sys.path.insert(0, str(backend_dir)) + +if __name__ == "__main__": + print(f"Starting ZARR FUSE Dashboard Backend") + print(f"Backend directory: {backend_dir}") + print(f"Server will be available at: http://localhost:8000") + print(f"API documentation: http://localhost:8000/docs") + print(f"Health check: http://localhost:8000/health") + print() + + # Run the server + uvicorn.run( + "main:app", + host="0.0.0.0", + port=8000, + reload=True, + log_level="info", + reload_dirs=[str(backend_dir)] + ) diff --git a/app/databuk/dashboard/backend/services/__init__.py b/app/databuk/dashboard/backend/services/__init__.py new file mode 100644 index 00000000..6203184d --- /dev/null +++ b/app/databuk/dashboard/backend/services/__init__.py @@ -0,0 +1 @@ +# Business logic services diff --git a/app/databuk/dashboard/backend/services/s3_service.py b/app/databuk/dashboard/backend/services/s3_service.py new file mode 100644 index 00000000..a1cde87e --- /dev/null +++ b/app/databuk/dashboard/backend/services/s3_service.py @@ -0,0 +1,1017 @@ +import zarr +from zarr.storage import FsspecStore +import logging +import math +from typing import Dict, Any, Optional, List +from core.config_manager import config_manager, EndpointConfig +import fsspec + +# zarr_fuse integration - simplified approach +ZARR_FUSE_AVAILABLE = False +try: + # Add project root to Python path + import sys + from pathlib import Path + project_root = Path(__file__).parent.parent.parent.parent.parent.parent + sys.path.insert(0, str(project_root)) + + import zarr_fuse + ZARR_FUSE_AVAILABLE = True +except ImportError as e: + ZARR_FUSE_AVAILABLE = False + print(f"DEBUG: zarr_fuse import failed: {e}") + +logger = logging.getLogger(__name__) + +def clean_nan_values(data): + """Clean NaN and Infinity values from data for JSON serialization""" + if isinstance(data, float): + if math.isnan(data): + return "NaN" # Return as string + elif math.isinf(data): + return "Infinity" if data > 0 else "-Infinity" + elif isinstance(data, dict): + return {k: clean_nan_values(v) for k, v in data.items()} + elif isinstance(data, list): + return [clean_nan_values(item) for item in data] + return data + +class S3Service: + """Service for S3 operations with custom S3 configuration""" + + def __init__(self): + self._fs: Optional[fsspec.AbstractFileSystem] = None + self._current_config: Optional[EndpointConfig] = None + + def _get_storage_options(self, config: Optional[EndpointConfig] = None) -> Dict[str, Any]: + """Get S3 storage options - centralized configuration""" + if not config: + config = self._current_config + + if not config: + raise ValueError("No configuration provided") + + return { + 'key': config.S3_access_key, + 'secret': config.S3_secret_key, + 'client_kwargs': {'endpoint_url': config.S3_ENDPOINT_URL}, + 'config_kwargs': { + 's3': { + 'payload_signing_enabled': False, + 'addressing_style': 'path' + }, + 'retries': {'max_attempts': 5, 'mode': 'standard'}, + 'connect_timeout': 20, + 'read_timeout': 60, + 'request_checksum_calculation': 'when_required', + 'response_checksum_validation': 'when_required' + } + } + + def _open_zarr_store(self, store_path: str) -> tuple: + """Open Zarr store and return (store_mapper, store_group)""" + storage_options = self._get_storage_options() + + bucket_name = self._current_config.STORE_URL.split('/')[2] + # Normalize path and avoid duplicating bucket + normalized_path = store_path.lstrip('/') + if normalized_path.startswith(f"{bucket_name}/"): + mapper_url = f"s3://{normalized_path}" + else: + mapper_url = f"s3://{bucket_name}/{normalized_path}" + store = fsspec.get_mapper(mapper_url, **storage_options) + + # Open the Zarr store - try different approaches + store_group = None + print(f"Attempting to open store: {store_path}") + + # Attempt 1: Try to open as Zarr group (preferred method) + try: + store_group = zarr.open_group(store) + return store, store_group + except Exception as zarr_error: + print(f"WARNING: Could not open as Zarr group: {zarr_error}") + + # Attempt 2: Fallback to minimal structure from store contents + try: + contents = list(store.list_dir("")) + if contents: + print(f"Creating minimal structure from {len(contents)} items") + minimal_structure = { + 'name': store_path.split('/')[-1], + 'path': store_path, + 'type': 'group', + 'children': [{'name': item, 'path': item, 'type': 'unknown'} for item in contents] + } + return store, minimal_structure + except Exception as fallback_error: + print(f"WARNING: Fallback method also failed: {fallback_error}") + + # Both attempts failed + raise Exception(f"Could not open store '{store_path}' in any format") + + def _find_group_variables(self, store, store_group, group_path: str = "") -> List[str]: + """Find available variables in a group using multiple fallback approaches""" + + # Method 1: Use store.list_dir() (preferred for FsspecStore) + try: + store_keys = list(store.list_dir("")) + print(f"Store list_dir result: {len(store_keys)} items") + + group_variables = [] + group_prefix = f"{group_path}/" if group_path else "" + + for key in store_keys: + if key.startswith(group_prefix) and key.endswith('/zarr.json'): + var_path_parts = key.split('/') + # Extract variable name from group_path/variable_name/zarr.json + expected_parts = len(group_prefix.split('/')) + 1 if group_prefix else 2 + if len(var_path_parts) == expected_parts: + variable_name = var_path_parts[-2] # Second to last part + group_variables.append(variable_name) + + if group_variables: + print(f"SUCCESS: Found {len(group_variables)} variables using list_dir in {group_path or 'root'}") + return group_variables + except Exception as e: + print(f"WARNING: list_dir method failed: {e}") + + # Method 2: Access group directly + try: + if group_path: + target_group = store_group[group_path] + else: + target_group = store_group + group_variables = list(target_group.keys()) + print(f"SUCCESS: Found {len(group_variables)} variables using group keys in {group_path or 'root'}") + return group_variables + except Exception as e: + print(f"WARNING: Group access method failed: {e}") + + # Both methods failed + print(f"ERROR: Could not find variables in {group_path or 'root'} using any method") + return [] + + def _process_group(self, group, group_path: str) -> Dict[str, Any]: + """Recursively process a Zarr group""" + result = { + 'name': group_path.split('/')[-1] if group_path else 'root', + 'path': group_path, + 'type': 'group', + 'children': [] + } + + # Use test script approach for subgroups and arrays + all_subkeys = list(group.keys()) if hasattr(group, 'keys') else [] + subgroups = [] + arrays = [] + + # Check if this is a group that needs store-level variable detection + if hasattr(group, 'store') and hasattr(group, 'path'): + group_path_attr = getattr(group, 'path', '') + # Generic check for any group that might have variables in store + if group_path_attr: + try: + store_keys = list(group.store.list_dir("")) + group_prefix = f"{group_path_attr}/" + group_keys = [key for key in store_keys if key.startswith(group_prefix) and '/' in key[len(group_prefix):]] + # Extract variable names from group_path/variable_name/... + variable_names = set() + for key in group_keys: + parts = key.split('/') + if len(parts) >= 2 and parts[0] == group_path_attr: + var_name = parts[1] + if var_name and not var_name.startswith('.'): + variable_names.add(var_name) + + all_subkeys = list(variable_names) + + # Assume all are arrays (weather variables) + arrays = all_subkeys + subgroups = [] + + # Process arrays + for name in arrays: + try: + array_info = { + 'name': name, + 'path': f"{group_path}/{name}" if group_path else name, + 'type': 'array', + 'shape': 'unknown', + 'dtype': 'unknown' + } + result['children'].append(array_info) + except Exception as e: + print(f"WARNING: Could not process array {name}: {e}") + + return result + + except Exception as e: + print(f"WARNING: Store-level variable detection failed for {group_path_attr}: {e}") + + for key in all_subkeys: + try: + item = group[key] + if hasattr(item, 'shape'): # It's an array + arrays.append(key) + else: # It's a group + subgroups.append(key) + except Exception as e: + print(f"WARNING: Could not access subkey {key}: {e}") + + # Process arrays first + for name in arrays: + try: + dataset = group[name] + sample_data = self._get_sample_data(dataset) + result['children'].append({ + 'name': name, + 'path': f"{group_path}/{name}" if group_path else name, + 'type': 'array', + 'shape': getattr(dataset, 'shape', None), + 'dtype': str(getattr(dataset, 'dtype', 'unknown')), + 'chunks': getattr(dataset, 'chunks', None), + 'size': getattr(dataset, 'size', None), + 'sample_data': sample_data + }) + except Exception as e: + print(f"WARNING: Failed to process array {name}: {e}") + + # Then process subgroups + for name in subgroups: + try: + subgroup = group[name] + subgroup_result = self._process_group(subgroup, f"{group_path}/{name}" if group_path else name) + result['children'].append(subgroup_result) + except Exception as e: + print(f"WARNING: Failed to process subgroup {name}: {e}") + + return result + + def connect(self, endpoint_config: EndpointConfig) -> bool: + """Connect to S3 using common S3 configuration""" + try: + # Use fsspec.get_mapper approach for listing + storage_options = self._get_storage_options(endpoint_config) + + # Use fsspec.filesystem for listing operations + self._fs = fsspec.filesystem('s3', **storage_options) + self._current_config = endpoint_config + logger.info(f"Successfully connected to S3: {endpoint_config.STORE_URL}") + return True + except Exception as e: + logger.error(f"Failed to connect to S3: {e}") + print(f"Connection error details: {str(e)}") + return False + + def get_store_structure(self) -> Dict[str, Any]: + """Get the structure of the specific Zarr store from STORE_URL""" + if not self._fs: + raise ValueError("Not connected to S3") + + # Check if zarr_fuse integration is enabled + use_zarr_fuse = getattr(self._current_config, 'Use_zarr_fuse', False) + if use_zarr_fuse: + if ZARR_FUSE_AVAILABLE: + print(f"Using zarr_fuse path for structure") + return self._get_store_structure_zarr_fuse() + else: + raise Exception("zarr_fuse integration enabled but library not available") + + # LEGACY CODE BELOW - NO CHANGES TO EXISTING LOGIC + try: + # Extract store path from STORE_URL + store_url = self._current_config.STORE_URL + if store_url.startswith('s3://'): + store_path = store_url[5:] # Remove 's3://' prefix + else: + store_path = store_url + + print(f"Using specific store path from STORE_URL: {store_path}") + + # Get store name (last part of path) + store_name = store_path.split('/')[-1] + print(f"Store name: {store_name}") + + # Try to open the specific Zarr store + zarr_stores = [] + try: + store_structure = self._extract_structure(store_path) + zarr_stores.append({ + 'name': store_name, + 'path': store_path, + 'type': 'zarr_store', + 'structure': store_structure + }) + print(f"SUCCESS: Successfully processed: {store_name}") + except Exception as e: + # If we can't read the store, still list it but mark as error + zarr_stores.append({ + 'name': store_name, + 'path': store_path, + 'type': 'zarr_store', + 'error': f"Could not read store: {str(e)}" + }) + print(f"ERROR: Error processing: {store_name} - {e}") + + print(f"Total Zarr stores found: {len(zarr_stores)}") + + # Debug: print the structure of the store + if zarr_stores and zarr_stores[0].get('structure'): + print("Store structure:") + import json + print(json.dumps(zarr_stores[0]['structure'], indent=2, default=str)) + + # Extract bucket name for response + bucket_name = store_path.split('/')[0] + + return { + 'status': 'success', + 'bucket_name': bucket_name, + 'store_url': store_url, + 'total_stores': len(zarr_stores), + 'stores': zarr_stores + } + + except Exception as e: + logger.error(f"Failed to get store structure: {e}") + raise ValueError(f"Failed to get store structure: {e}") + + def _get_store_structure_zarr_fuse(self) -> Dict[str, Any]: + """New implementation using zarr_fuse library""" + try: + # Get store configuration + store_url = self._current_config.STORE_URL + store_path = store_url[5:] if store_url.startswith('s3://') else store_url + store_name = store_path.split('/')[-1] + + print(f"Opening store with zarr_fuse: {store_path}") + + # Create storage options for zarr_fuse + storage_options = self._get_storage_options() + + # Create zarr store directly using zarr_fuse's internal functions + # Convert dashboard config to zarr_fuse format + zf_options = { + 'STORE_URL': store_url, + 'S3_ENDPOINT_URL': self._current_config.S3_ENDPOINT_URL, # Use config directly + 'S3_ACCESS_KEY': self._current_config.S3_access_key, # Use config directly + 'S3_SECRET_KEY': self._current_config.S3_secret_key, # Use config directly + 'S3_OPTIONS': '{}' # Empty JSON for custom options + } + + print(f"DEBUG: zf_options = {zf_options}") + + # Open zarr store using zarr_fuse's internal function + zarr_store = zarr_fuse.zarr_storage._zarr_store_open(zf_options) + + # Use direct xarray approach instead of Node for now + # This avoids the FsspecStore.get() prototype issue + try: + # Open the root dataset directly + import xarray as xr + ds = xr.open_zarr(zarr_store) + structure = self._build_structure_from_dataset(ds, "") + except Exception as e: + print(f"Warning: Could not open root dataset, trying group approach: {e}") + # Fallback: try to open as group and traverse + import zarr + group = zarr.open_group(zarr_store, mode='r') + structure = self._build_structure_from_zarr_group(group, "") + + # Convert zarr_fuse structure to legacy format + legacy_structure = self._convert_to_legacy_format(structure) + + # Format response to match legacy format + zarr_stores = [{ + 'name': store_name, + 'path': store_path, + 'type': 'zarr_store', + 'structure': legacy_structure + }] + + # Debug: print structure to see what we're returning + print(f"DEBUG: zarr_fuse structure = {structure}") + import json + print(f"DEBUG: structure JSON = {json.dumps(structure, indent=2, default=str)}") + + bucket_name = store_path.split('/')[0] + + return { + 'status': 'success', + 'bucket_name': bucket_name, + 'store_url': store_url, + 'total_stores': len(zarr_stores), + 'stores': zarr_stores + } + + except Exception as e: + logger.error(f"Failed to get store structure with zarr_fuse: {e}") + raise ValueError(f"Failed to get store structure with zarr_fuse: {e}") + + def _build_structure_from_node(self, node: 'zarr_fuse.Node') -> Dict[str, Any]: + """Build structure dictionary from zarr_fuse Node""" + structure = {} + + # Add current node's dataset info + try: + ds = node.dataset + if ds: + # Add variables + if ds.data_vars: + structure['vars'] = {} + for var_name, var in ds.data_vars.items(): + structure['vars'][var_name] = { + 'dims': list(var.dims), + 'shape': list(var.shape), + 'dtype': str(var.dtype), + 'attrs': dict(var.attrs) + } + + # Add coordinates + if ds.coords: + structure['coords'] = {} + for coord_name, coord in ds.coords.items(): + structure['coords'][coord_name] = { + 'dims': list(coord.dims), + 'shape': list(coord.shape), + 'dtype': str(coord.dtype), + 'attrs': dict(coord.attrs) + } + + # Add global attributes + if ds.attrs: + structure['attrs'] = dict(ds.attrs) + except Exception as e: + print(f"Warning: Could not read dataset for node {node.name}: {e}") + + # Add children (subgroups) + if hasattr(node, 'children') and node.children: + structure['groups'] = {} + for child_name, child_node in node.children.items(): + structure['groups'][child_name] = self._build_structure_from_node(child_node) + + return structure + + def _build_structure_from_dataset(self, ds: 'xr.Dataset', group_path: str) -> Dict[str, Any]: + """Build structure dictionary from xarray Dataset""" + structure = {} + + # Add variables + if ds.data_vars: + structure['vars'] = {} + for var_name, var in ds.data_vars.items(): + structure['vars'][var_name] = { + 'dims': list(var.dims), + 'shape': list(var.shape), + 'dtype': str(var.dtype), + 'attrs': dict(var.attrs) + } + + # Add coordinates + if ds.coords: + structure['coords'] = {} + for coord_name, coord in ds.coords.items(): + structure['coords'][coord_name] = { + 'dims': list(coord.dims), + 'shape': list(coord.shape), + 'dtype': str(coord.dtype), + 'attrs': dict(coord.attrs) + } + + # Add global attributes + if ds.attrs: + structure['attrs'] = dict(ds.attrs) + + return structure + + def _build_structure_from_zarr_group(self, group: 'zarr.Group', group_path: str) -> Dict[str, Any]: + """Build structure dictionary from zarr Group""" + structure = {} + + # Add arrays (variables) + arrays = list(group.arrays()) + if arrays: + structure['vars'] = {} + for name, array in arrays: + structure['vars'][name] = { + 'dims': list(array.shape), # Simplified - zarr doesn't have dim names + 'shape': list(array.shape), + 'dtype': str(array.dtype), + 'attrs': dict(array.attrs) + } + + # Add subgroups + subgroups = list(group.groups()) + if subgroups: + structure['groups'] = {} + for name, subgroup in subgroups: + structure['groups'][name] = self._build_structure_from_zarr_group(subgroup, f"{group_path}/{name}") + + # Add group attributes + if group.attrs: + structure['attrs'] = dict(group.attrs) + + return structure + + def _convert_to_legacy_format(self, zf_structure: Dict[str, Any]) -> Dict[str, Any]: + """Convert zarr_fuse structure format to legacy dashboard format""" + legacy = { + 'name': 'root', + 'path': '', + 'type': 'group', + 'children': [] + } + + # Add variables as arrays + if 'vars' in zf_structure: + for var_name, var_info in zf_structure['vars'].items(): + legacy['children'].append({ + 'name': var_name, + 'path': var_name, + 'type': 'array', + 'shape': var_info['shape'], + 'dtype': var_info['dtype'], + 'chunks': var_info['shape'], # Simplified + 'size': var_info['shape'][0] if var_info['shape'] else 0, + 'sample_data': [] # Will be filled by legacy code + }) + + # Add groups recursively + if 'groups' in zf_structure: + for group_name, group_info in zf_structure['groups'].items(): + group_legacy = { + 'name': group_name, + 'path': group_name, + 'type': 'group', + 'children': [] + } + + # Add group variables + if 'vars' in group_info: + for var_name, var_info in group_info['vars'].items(): + group_legacy['children'].append({ + 'name': var_name, + 'path': f"{group_name}/{var_name}", + 'type': 'array', + 'shape': var_info['shape'], + 'dtype': var_info['dtype'], + 'chunks': var_info['shape'], + 'size': var_info['shape'][0] if var_info['shape'] else 0, + 'sample_data': [] + }) + + # Add subgroups recursively + if 'groups' in group_info: + for subgroup_name, subgroup_info in group_info['groups'].items(): + subgroup_legacy = self._convert_group_to_legacy(subgroup_name, f"{group_name}/{subgroup_name}", subgroup_info) + group_legacy['children'].append(subgroup_legacy) + + legacy['children'].append(group_legacy) + + return legacy + + def _convert_group_to_legacy(self, group_name: str, group_path: str, group_info: Dict[str, Any]) -> Dict[str, Any]: + """Convert a single group to legacy format""" + group_legacy = { + 'name': group_name, + 'path': group_path, + 'type': 'group', + 'children': [] + } + + # Add variables + if 'vars' in group_info: + for var_name, var_info in group_info['vars'].items(): + group_legacy['children'].append({ + 'name': var_name, + 'path': f"{group_path}/{var_name}", + 'type': 'array', + 'shape': var_info['shape'], + 'dtype': var_info['dtype'], + 'chunks': var_info['shape'], + 'size': var_info['shape'][0] if var_info['shape'] else 0, + 'sample_data': [] + }) + + # Add subgroups recursively + if 'groups' in group_info: + for subgroup_name, subgroup_info in group_info['groups'].items(): + subgroup_legacy = self._convert_group_to_legacy(subgroup_name, f"{group_path}/{subgroup_name}", subgroup_info) + group_legacy['children'].append(subgroup_legacy) + + return group_legacy + + def _extract_structure(self, store_path: str) -> Dict[str, Any]: + """Extract structure from a Zarr store - refactored and simplified""" + try: + print(f"Extracting structure from: {store_path}") + + # Step 1: Open the Zarr store + store, store_group = self._open_zarr_store(store_path) + + # Handle early return case (minimal structure) + if isinstance(store_group, dict): + return store_group + + # Step 2: Process the store group recursively + final_result = self._process_group(store_group, "") + print(f"Final structure: {final_result['name']} with {len(final_result['children'])} children") + return final_result + + except Exception as e: + logger.error(f"Failed to extract structure from {store_path}: {e}") + raise + + def _get_sample_data(self, dataset: zarr.Array) -> List[Any]: + """Helper to get sample data from a Zarr array.""" + try: + if dataset.size > 0: + # Get first 10 values or all if less than 10 + sample_size = min(10, dataset.size) + if len(dataset.shape) == 1: + # 1D array + sample_data = dataset[:sample_size] + elif len(dataset.shape) == 2: + # 2D array - get first few rows and columns + sample_data = dataset[:min(5, dataset.shape[0]), :min(5, dataset.shape[1])] + else: + # Higher dimensional - get first slice + sample_data = dataset[tuple(slice(0, min(3, dim)) for dim in dataset.shape)] + return clean_nan_values(sample_data.tolist()) + else: + return [] + except Exception as e: + logger.warning(f"Failed to get sample data for dataset: {e}") + return [] + + + def get_node_details(self, store_name: str, node_path: str) -> Dict[str, Any]: + """Get detailed information about a specific node in a Zarr store""" + if not self._fs or not self._current_config: + raise ValueError("Not connected to S3. Call connect() first.") + + # Check if zarr_fuse integration is enabled + use_zarr_fuse = getattr(self._current_config, 'Use_zarr_fuse', False) + if use_zarr_fuse: + if ZARR_FUSE_AVAILABLE: + print(f"Using zarr_fuse path for node details: {node_path}") + return self._get_node_details_zarr_fuse(store_name, node_path) + else: + raise Exception("zarr_fuse integration enabled but library not available") + + # LEGACY CODE BELOW - NO CHANGES TO EXISTING LOGIC + try: + print(f"Getting details for node: {store_name}/{node_path}") + + # Use the store path from STORE_URL directly + store_url = self._current_config.STORE_URL + if store_url.startswith('s3://'): + store_path = store_url[5:] # Remove 's3://' prefix + else: + store_path = store_url + + print(f"Using store path from STORE_URL: {store_path}") + + # Open the store + storage_options = self._get_storage_options() + + # Use zarr_fuse approach: FsspecStore instead of get_mapper + fs = fsspec.filesystem('s3', asynchronous=False, **storage_options) + clean_path = store_path # Already clean, no s3:// prefix + store = FsspecStore(fs, path=clean_path) + print(f"Created FsspecStore for node details: {clean_path}") + + # Try to open as group first + try: + # Remove 'root/' prefix if present + clean_node_path = node_path.replace('root/', '') if node_path.startswith('root/') else node_path + + # Special handling for root node + if clean_node_path == 'root' or clean_node_path == '': + node = zarr.open_group(store, mode='r') + node_type = 'group' + elif clean_node_path: + # For FsspecStore, don't use path parameter - create new store with path + node_fs = fsspec.filesystem('s3', asynchronous=False, **storage_options) + node_store = FsspecStore(node_fs, path=f"{clean_path}/{clean_node_path}") + node = zarr.open_group(node_store, mode='r') + node_type = 'group' + else: + node = zarr.open_group(store, mode='r') + node_type = 'group' + except Exception as e: + print(f"WARNING: Failed to open as group: {e}") + print(f"Now trying to open as array...") + try: + # Remove 'root/' prefix if present + clean_node_path = node_path.replace('root/', '') if node_path.startswith('root/') else node_path + + # Special handling for root node + if clean_node_path == 'root' or clean_node_path == '': + # Root should be opened as group, not array + node = zarr.open_group(store, mode='r') + node_type = 'group' + elif clean_node_path: + # For FsspecStore, don't use path parameter - create new store with path + node_fs = fsspec.filesystem('s3', asynchronous=False, **storage_options) + node_store = FsspecStore(node_fs, path=f"{clean_path}/{clean_node_path}") + node = zarr.open_array(node_store, mode='r') + node_type = 'array' + else: + node = zarr.open_array(store, mode='r') + node_type = 'array' + except Exception as e2: + print(f"WARNING: Failed to open as array: {e2}") + print(f"ERROR: Both group and array attempts failed") + raise FileNotFoundError(f"Node not found: {node_path}") + + # Extract node details + details = { + 'name': node_path.split('/')[-1] if node_path else store_name, + 'path': node_path, + 'type': node_type, + 'store_name': store_name, + 'attrs': {}, + 'coords': {}, + 'vars': {} + } + + if node_type == 'group': + # Get attributes + try: + details['attrs'] = dict(node.attrs) + except Exception as e: + print(f"WARNING: Failed to get attributes: {e}") + + # Special handling for yr.no group + if clean_node_path == 'yr.no': + print(f"Special handling for yr.no group in get_node_details") + try: + # Use store.list_dir() to find weather variables + store_keys = list(store.list_dir("")) + yr_no_keys = [key for key in store_keys if key.startswith('yr.no/') and '/' in key[6:]] + + # Extract variable names + variable_names = set() + for key in yr_no_keys: + parts = key.split('/') + if len(parts) >= 2 and parts[0] == 'yr.no': + var_name = parts[1] + if var_name and not var_name.startswith('.'): + variable_names.add(var_name) + + print(f"Found yr.no variables in get_node_details: {list(variable_names)}") + + # Add variables to details (LIMITED INFO) + for var_name in sorted(variable_names): + details['vars'][var_name] = { + 'name': var_name, + 'path': f"{clean_node_path}/{var_name}", + 'type': 'array', + 'shape': 'Click to load...', + 'dtype': 'Loading...', + 'sample_data': '(Click variable to see data)' + } + print(f"📄 Added variable to details: {var_name}") + + print(f"SUCCESS: Extracted details for {node_path}") + return clean_nan_values(details) + + except Exception as e: + print(f"WARNING: yr.no fallback in get_node_details failed: {e}") + + # Get coordinates and variables + try: + subgroups = list(getattr(node, 'group_keys')()) + arrays = list(getattr(node, 'array_keys')()) + + # Process coordinates (usually groups with coordinate data) + for name in subgroups: + try: + coord_group = node[name] + coord_details = self._extract_coordinate_info(coord_group, name) + details['coords'][name] = coord_details + except Exception as e: + print(f"WARNING: Failed to process coordinate {name}: {e}") + + # Process variables (arrays) + for name in arrays: + try: + var_array = node[name] + var_details = self._extract_variable_info(var_array, name) + details['vars'][name] = var_details + except Exception as e: + print(f"WARNING: Failed to process variable {name}: {e}") + + except Exception as e: + print(f"WARNING: Failed to get group contents: {e}") + + elif node_type == 'array': + # For arrays, treat as a variable + var_details = self._extract_variable_info(node, node_path.split('/')[-1] if node_path else store_name) + details['vars'][node_path.split('/')[-1] if node_path else store_name] = var_details + + print(f"SUCCESS: Extracted details for {node_path}") + return clean_nan_values(details) + + except Exception as e: + logger.error(f"Failed to get node details for {store_name}/{node_path}: {e}") + raise + + def _get_node_details_zarr_fuse(self, store_name: str, node_path: str) -> Dict[str, Any]: + """New implementation using zarr_fuse library""" + # TODO: Implement zarr_fuse integration + raise NotImplementedError("zarr_fuse node details integration not yet implemented") + + def get_variable_data(self, store_name: str, variable_path: str) -> Dict[str, Any]: + """Get actual data for a specific variable (limited sample)""" + try: + print(f"Getting variable data: {store_name}/{variable_path}") + + # Ensure config is loaded + if not self._current_config: + from core.config_manager import config_manager + self._current_config = config_manager.get_first_endpoint() + if not self._current_config: + raise Exception("No endpoint configuration found") + + # Check if zarr_fuse integration is enabled + use_zarr_fuse = getattr(self._current_config, 'Use_zarr_fuse', False) + if use_zarr_fuse: + if ZARR_FUSE_AVAILABLE: + print(f"Using zarr_fuse path for variable: {variable_path}") + return self._get_variable_data_zarr_fuse(store_name, variable_path) + else: + raise Exception("zarr_fuse integration enabled but library not available") + + # LEGACY CODE BELOW - NO CHANGES TO EXISTING LOGIC + # Get store configuration + store_url = self._current_config.STORE_URL + store_path = store_url[5:] if store_url.startswith('s3://') else store_url + print(f"Using store path: {store_path}") + + # Create storage options + storage_options = self._get_storage_options() + print(f"Using storage options: {storage_options}") + + # Use zarr_fuse approach: FsspecStore instead of get_mapper + fs = fsspec.filesystem('s3', asynchronous=False, **storage_options) + clean_path = store_path # Already clean, no s3:// prefix + store = FsspecStore(fs, path=clean_path) + print(f"Created FsspecStore like zarr_fuse: {clean_path}") + + # Open the variable array using test script approach + try: + print(f"Opening variable array: {variable_path}") + + # First open the store as group + store_group = zarr.open_group(store, mode='r') + print(f"Opened store group, accessing: {variable_path}") + + # Debug: List what's actually in the store + print(f"Store group keys: {list(store_group.keys())}") + + # Generic approach: Parse full variable path + print(f"Opening variable array: {variable_path}") + + try: + # Try direct path access first + variable_array = zarr.open_array(store, path=variable_path, mode='r') + print(f"SUCCESS: Opened variable using direct path: {variable_path}") + except Exception as e: + print(f"ERROR: Direct path failed: {e}") + try: + # Alternative: Use zarr.open with full path + variable_array = zarr.open(store)[variable_path] + print(f"SUCCESS: Opened variable using zarr.open()[path]: {variable_path}") + except Exception as e2: + print(f"ERROR: Both approaches failed: {e2}") + return {"error": f"Failed to open variable {variable_path}: {e2}"} + else: + variable_array = store_group[variable_path] + + print(f"SUCCESS: Opened variable array: {variable_path}") + + # Get basic info + shape = variable_array.shape + dtype = str(variable_array.dtype) + + # Get sample data (first few values) + if len(shape) == 1: + # 1D array - get first 10 values + sample_data = variable_array[:10].tolist() + elif len(shape) == 2: + # 2D array - get first 5x5 slice + sample_data = variable_array[:5, :5].tolist() + elif len(shape) == 3: + # 3D array - get first slice + sample_data = variable_array[0, :5, :5].tolist() + else: + # Higher dimensions - just get first few elements flattened + flat_data = variable_array.flatten() + sample_data = flat_data[:20].tolist() + + # Get min/max (from small sample to avoid memory issues) + if len(shape) <= 2: + min_val = float(variable_array[:100].min()) if variable_array.size > 0 else None + max_val = float(variable_array[:100].max()) if variable_array.size > 0 else None + else: + # For higher dimensions, use a smaller sample + sample = variable_array.flatten()[:1000] + min_val = float(sample.min()) if len(sample) > 0 else None + max_val = float(sample.max()) if len(sample) > 0 else None + + result = { + 'name': variable_path.split('/')[-1], + 'path': variable_path, + 'shape': list(shape), + 'dtype': dtype, + 'size': int(variable_array.size), + 'sample_data': sample_data, + 'min': min_val, + 'max': max_val, + 'attrs': dict(variable_array.attrs) if hasattr(variable_array, 'attrs') else {} + } + return clean_nan_values(result) + + except Exception as e: + print(f"WARNING: Failed to open variable array: {e}") + return { + 'name': variable_path.split('/')[-1], + 'path': variable_path, + 'error': f"Failed to load variable: {str(e)}" + } + + except Exception as e: + print(f"ERROR: Error getting variable data: {e}") + raise + + def _get_variable_data_zarr_fuse(self, store_name: str, variable_path: str) -> Dict[str, Any]: + """New implementation using zarr_fuse library""" + # TODO: Implement zarr_fuse integration + raise NotImplementedError("zarr_fuse integration not yet implemented") + + def _extract_coordinate_info(self, coord_group, name: str) -> Dict[str, Any]: + """Extract information about a coordinate""" + try: + info = { + 'name': name, + 'type': 'coordinate' + } + + # Get attributes + try: + info['attrs'] = dict(coord_group.attrs) + except Exception: + info['attrs'] = {} + + # Get arrays in the coordinate group + arrays = list(getattr(coord_group, 'array_keys')()) + for array_name in arrays: + try: + array = coord_group[array_name] + info['values'] = { + 'shape': array.shape, + 'dtype': str(array.dtype), + 'sample_data': self._get_sample_data(array), + 'min': float(array[:].min()) if array.size > 0 else None, + 'max': float(array[:].max()) if array.size > 0 else None, + 'count': array.size + } + except Exception as e: + print(f"WARNING: Failed to process coordinate array {array_name}: {e}") + + return info + except Exception as e: + print(f"WARNING: Failed to extract coordinate info for {name}: {e}") + return {'name': name, 'type': 'coordinate', 'error': str(e)} + + def _extract_variable_info(self, var_array, name: str) -> Dict[str, Any]: + """Extract information about a variable""" + try: + info = { + 'name': name, + 'type': 'variable', + 'shape': var_array.shape, + 'dtype': str(var_array.dtype), + 'chunks': var_array.chunks, + 'size': var_array.size, + 'sample_data': self._get_sample_data(var_array), + 'min': float(var_array[:].min()) if var_array.size > 0 else None, + 'max': float(var_array[:].max()) if var_array.size > 0 else None + } + + # Get attributes + try: + info['attrs'] = dict(var_array.attrs) + except Exception: + info['attrs'] = {} + + return info + except Exception as e: + print(f"WARNING: Failed to extract variable info for {name}: {e}") + return {'name': name, 'type': 'variable', 'error': str(e)} + +# Global S3 service instance +s3_service = S3Service() diff --git a/app/databuk/dashboard/charts/dashboard/.helmignore b/app/databuk/dashboard/charts/dashboard/.helmignore new file mode 100644 index 00000000..0e8a0eb3 --- /dev/null +++ b/app/databuk/dashboard/charts/dashboard/.helmignore @@ -0,0 +1,23 @@ +# Patterns to ignore when building packages. +# This supports shell glob matching, relative path matching, and +# negation (prefixed with !). Only one pattern per line. +.DS_Store +# Common VCS dirs +.git/ +.gitignore +.bzr/ +.bzrignore +.hg/ +.hgignore +.svn/ +# Common backup files +*.swp +*.bak +*.tmp +*.orig +*~ +# Various IDEs +.project +.idea/ +*.tmproj +.vscode/ diff --git a/app/databuk/dashboard/charts/dashboard/Chart.yaml b/app/databuk/dashboard/charts/dashboard/Chart.yaml new file mode 100644 index 00000000..066979f4 --- /dev/null +++ b/app/databuk/dashboard/charts/dashboard/Chart.yaml @@ -0,0 +1,12 @@ +apiVersion: v2 +name: dashboard +description: Zarr fuse dashboard to visualize and manage Zarr stores +type: application +version: 1.0.0 +appVersion: "1.0.0" +home: https://github.com/geomop/zarr_fuse +sources: + - https://github.com/geomop/zarr_fuse +maintainers: + - name: Stepan Moc + email: stepan.mocik@gmail.com diff --git a/app/databuk/dashboard/charts/dashboard/templates/backend/configmap.yaml b/app/databuk/dashboard/charts/dashboard/templates/backend/configmap.yaml new file mode 100644 index 00000000..05b6b957 --- /dev/null +++ b/app/databuk/dashboard/charts/dashboard/templates/backend/configmap.yaml @@ -0,0 +1,29 @@ +apiVersion: v1 +kind: ConfigMap +metadata: + name: {{ .Values.backend.name }}-config + labels: + app.kubernetes.io/name: {{ .Values.backend.name }} +data: + endpoints.yaml: |- + "production_s3_endpoint": + # Reload settings + Reload_interval: 300 # 5 minutes in seconds + + # Schema configuration + Schema_file: "schemas/production_schema.yaml" + + # S3 Store configuration - Using new credentials + STORE_URL: "s3://app-databuk-release-service/bukov.zarr" + + S3_ENDPOINT_URL: "https://s3.cl4.du.cesnet.cz" + S3_access_key: "{{ .Values.backend.secrets.s3.accessKey }}" + S3_secret_key: "{{ .Values.backend.secrets.s3.secretKey }}" + + S3_region: "us-east-1" + S3_use_ssl: true + S3_verify_ssl: true + + Description: "Surface Zarr store with weather data (CESNET)" + Store_type: "zarr" + Version: "1.0.0" diff --git a/app/databuk/dashboard/charts/dashboard/templates/backend/deployment.yaml b/app/databuk/dashboard/charts/dashboard/templates/backend/deployment.yaml new file mode 100644 index 00000000..0239992b --- /dev/null +++ b/app/databuk/dashboard/charts/dashboard/templates/backend/deployment.yaml @@ -0,0 +1,68 @@ +apiVersion: apps/v1 +kind: Deployment +metadata: + name: {{ .Values.backend.name }} + labels: + app.kubernetes.io/name: {{ .Values.backend.name }} +spec: + replicas: {{ .Values.backend.replicaCount | int }} + strategy: + type: RollingUpdate + selector: + matchLabels: + app.kubernetes.io/name: {{ .Values.backend.name }} + template: + metadata: + labels: + app.kubernetes.io/name: {{ .Values.backend.name }} + spec: + securityContext: + {{- toYaml .Values.backend.securityContext.pod | nindent 8 }} + volumes: + - name: dashboard-tmp + emptyDir: {} + - name: dashboard-config + configMap: + name: {{ .Values.backend.name }}-config + containers: + - name: {{ .Values.backend.name }} + image: "{{ .Values.registry.host }}/{{ .Values.backend.image.name }}:{{ .Values.backend.image.tag }}" + imagePullPolicy: {{ .Values.backend.image.pullPolicy }} + ports: + - name: {{ .Values.backend.service.internalPort.name | quote }} + containerPort: {{ .Values.backend.service.internalPort.number | int }} + envFrom: + - secretRef: + name: {{ .Values.backend.name }}-secrets + resources: + {{- toYaml .Values.backend.resources | nindent 12 }} + securityContext: + {{- toYaml .Values.backend.securityContext.container | nindent 12 }} + volumeMounts: + - name: dashboard-tmp + mountPath: /tmp + - name: dashboard-config + mountPath: /app/config/endpoints.yaml + subPath: endpoints.yaml + readOnly: true + startupProbe: + httpGet: + path: /health + port: http + periodSeconds: 5 + successThreshold: 1 + failureThreshold: 72 + livenessProbe: + httpGet: + path: /health + port: http + periodSeconds: 30 + successThreshold: 1 + failureThreshold: 10 + readinessProbe: + httpGet: + path: /health + port: http + periodSeconds: 30 + successThreshold: 1 + failureThreshold: 10 diff --git a/app/databuk/dashboard/charts/dashboard/templates/backend/secret.yaml b/app/databuk/dashboard/charts/dashboard/templates/backend/secret.yaml new file mode 100644 index 00000000..e930e088 --- /dev/null +++ b/app/databuk/dashboard/charts/dashboard/templates/backend/secret.yaml @@ -0,0 +1,10 @@ +apiVersion: v1 +kind: Secret +metadata: + name: {{ .Values.backend.name }}-secrets + labels: + app.kubernetes.io/name: {{ .Values.backend.name }} +type: Opaque +stringData: + S3_ACCESS_KEY: {{ .Values.backend.secrets.s3.accessKey | quote }} + S3_SECRET_KEY: {{ .Values.backend.secrets.s3.secretKey | quote }} diff --git a/app/databuk/dashboard/charts/dashboard/templates/backend/service.yaml b/app/databuk/dashboard/charts/dashboard/templates/backend/service.yaml new file mode 100644 index 00000000..1c38a242 --- /dev/null +++ b/app/databuk/dashboard/charts/dashboard/templates/backend/service.yaml @@ -0,0 +1,14 @@ +apiVersion: v1 +kind: Service +metadata: + name: {{ .Values.backend.name }} + labels: + app.kubernetes.io/name: {{ .Values.backend.name }} +spec: + type: {{ .Values.backend.service.type }} + selector: + app.kubernetes.io/name: {{ .Values.backend.name }} + ports: + - name: {{ .Values.backend.service.externalPort.name | quote }} + port: {{ .Values.backend.service.externalPort.number | int }} + targetPort: {{ .Values.backend.service.internalPort.name | quote }} diff --git a/app/databuk/dashboard/charts/dashboard/templates/frontend/deployment.yaml b/app/databuk/dashboard/charts/dashboard/templates/frontend/deployment.yaml new file mode 100644 index 00000000..7d410508 --- /dev/null +++ b/app/databuk/dashboard/charts/dashboard/templates/frontend/deployment.yaml @@ -0,0 +1,62 @@ +apiVersion: apps/v1 +kind: Deployment +metadata: + name: {{ .Values.frontend.name }} + labels: + app.kubernetes.io/name: {{ .Values.frontend.name }} +spec: + replicas: {{ .Values.frontend.replicaCount | int }} + strategy: + type: RollingUpdate + selector: + matchLabels: + app.kubernetes.io/name: {{ .Values.frontend.name }} + template: + metadata: + labels: + app.kubernetes.io/name: {{ .Values.frontend.name }} + spec: + securityContext: + {{- toYaml .Values.frontend.securityContext.pod | nindent 8 }} + volumes: + - name: tmp + emptyDir: {} + - name: nginx-tmp + emptyDir: {} + containers: + - name: {{ .Values.frontend.name }} + image: "{{ .Values.registry.host }}/{{ .Values.frontend.image.name }}:{{ .Values.frontend.image.tag }}" + imagePullPolicy: {{ .Values.frontend.image.pullPolicy }} + ports: + - name: {{ .Values.frontend.service.internalPort.name | quote }} + containerPort: {{ .Values.frontend.service.internalPort.number | int }} + resources: + {{- toYaml .Values.frontend.resources | nindent 12 }} + securityContext: + {{- toYaml .Values.frontend.securityContext.container | nindent 12 }} + volumeMounts: + - name: tmp + mountPath: "/tmp" + - name: nginx-tmp + mountPath: "/var/lib/nginx/tmp" + startupProbe: + httpGet: + path: /health + port: http + periodSeconds: 5 + successThreshold: 1 + failureThreshold: 72 + livenessProbe: + httpGet: + path: /health + port: http + periodSeconds: 30 + successThreshold: 1 + failureThreshold: 10 + readinessProbe: + httpGet: + path: /health + port: http + periodSeconds: 30 + successThreshold: 1 + failureThreshold: 10 diff --git a/app/databuk/dashboard/charts/dashboard/templates/frontend/service.yaml b/app/databuk/dashboard/charts/dashboard/templates/frontend/service.yaml new file mode 100644 index 00000000..8d2e4ad0 --- /dev/null +++ b/app/databuk/dashboard/charts/dashboard/templates/frontend/service.yaml @@ -0,0 +1,14 @@ +apiVersion: v1 +kind: Service +metadata: + name: {{ .Values.frontend.name }} + labels: + app.kubernetes.io/name: {{ .Values.frontend.name }} +spec: + type: {{ .Values.frontend.service.type }} + selector: + app.kubernetes.io/name: {{ .Values.frontend.name }} + ports: + - name: {{ .Values.frontend.service.externalPort.name | quote }} + port: {{ .Values.frontend.service.externalPort.number | int }} + targetPort: {{ .Values.frontend.service.internalPort.name | quote }} diff --git a/app/databuk/dashboard/charts/dashboard/templates/ingress.yaml b/app/databuk/dashboard/charts/dashboard/templates/ingress.yaml new file mode 100644 index 00000000..e2e7cc88 --- /dev/null +++ b/app/databuk/dashboard/charts/dashboard/templates/ingress.yaml @@ -0,0 +1,34 @@ +apiVersion: networking.k8s.io/v1 +kind: Ingress +metadata: + name: dashboard-ingress + labels: + app.kubernetes.io/name: dashboard-ingress + {{- if .Values.ingress.annotations }} + annotations: + {{ .Values.ingress.annotations | toYaml | nindent 4 }} + {{- end }} +spec: + ingressClassName: {{ .Values.ingress.className | quote }} + rules: + - host: zarr-fuse-dashboard.dyn.cloud.e-infra.cz + http: + paths: + - path: / + pathType: Prefix + backend: + service: + name: {{ .Values.frontend.name }} + port: + number: {{ .Values.frontend.service.externalPort.number | int }} + - path: /api + pathType: Prefix + backend: + service: + name: {{ .Values.backend.name }} + port: + number: {{ .Values.backend.service.externalPort.number | int }} + tls: + - secretName: zarr-fuse-dashboard-dyn-cloud-e-infra-cz-tls + hosts: + - zarr-fuse-dashboard.dyn.cloud.e-infra.cz diff --git a/app/databuk/dashboard/charts/dashboard/values.yaml b/app/databuk/dashboard/charts/dashboard/values.yaml new file mode 100644 index 00000000..2d5f179a --- /dev/null +++ b/app/databuk/dashboard/charts/dashboard/values.yaml @@ -0,0 +1,106 @@ +# -- Registry details +# @default -- ~ +registry: + # -- Host of the registry + host: docker.io + +backend: + name: dashboard-backend + replicaCount: 1 + image: + name: jbrezmorf/zarr-fuse-dashboard-backend + tag: latest + pullPolicy: Always + + service: + type: ClusterIP + externalPort: + number: 8000 + name: http + internalPort: + number: 8000 + name: http + + secrets: + s3: + accessKey: "your-access-key" + secretKey: "your-secret-key" + + resources: + requests: + cpu: 125m + memory: 128Mi + limits: + cpu: 250m + memory: 256Mi + + securityContext: + pod: + fsGroup: 11233 + runAsNonRoot: true + runAsUser: 11233 + runAsGroup: 11233 + container: + capabilities: + drop: + - ALL + allowPrivilegeEscalation: false + privileged: false + runAsNonRoot: true + runAsUser: 11233 + runAsGroup: 11233 + seccompProfile: + type: RuntimeDefault + +frontend: + name: dashboard-frontend + replicaCount: 1 + image: + name: jbrezmorf/zarr-fuse-dashboard-frontend + tag: latest + pullPolicy: Always + + service: + type: ClusterIP + externalPort: + number: 8091 + name: http + internalPort: + number: 8091 + name: http + + resources: + requests: + cpu: 125m + memory: 128Mi + limits: + cpu: 250m + memory: 256Mi + + securityContext: + pod: + fsGroup: 11233 + runAsNonRoot: true + runAsUser: 11233 + runAsGroup: 11233 + container: + capabilities: + drop: + - ALL + allowPrivilegeEscalation: false + privileged: false + runAsNonRoot: true + runAsUser: 11233 + runAsGroup: 11233 + seccompProfile: + type: RuntimeDefault + +# -- Ingress configuration +# @default -- ~ +ingress: + # -- Ingress class name + className: "nginx" + # -- Ingress annotations + annotations: + kubernetes.io/tls-acme: "true" + cert-manager.io/cluster-issuer: "letsencrypt-prod" diff --git a/app/databuk/dashboard/eslint.config.js b/app/databuk/dashboard/eslint.config.js new file mode 100644 index 00000000..d94e7deb --- /dev/null +++ b/app/databuk/dashboard/eslint.config.js @@ -0,0 +1,23 @@ +import js from '@eslint/js' +import globals from 'globals' +import reactHooks from 'eslint-plugin-react-hooks' +import reactRefresh from 'eslint-plugin-react-refresh' +import tseslint from 'typescript-eslint' +import { globalIgnores } from 'eslint/config' + +export default tseslint.config([ + globalIgnores(['dist']), + { + files: ['**/*.{ts,tsx}'], + extends: [ + js.configs.recommended, + tseslint.configs.recommended, + reactHooks.configs['recommended-latest'], + reactRefresh.configs.vite, + ], + languageOptions: { + ecmaVersion: 2020, + globals: globals.browser, + }, + }, +]) diff --git a/app/databuk/dashboard/index.html b/app/databuk/dashboard/index.html new file mode 100644 index 00000000..e4b78eae --- /dev/null +++ b/app/databuk/dashboard/index.html @@ -0,0 +1,13 @@ + + + + + + + Vite + React + TS + + +
+ + + diff --git a/app/databuk/dashboard/oci/Containerfile.backend b/app/databuk/dashboard/oci/Containerfile.backend new file mode 100644 index 00000000..be149e9a --- /dev/null +++ b/app/databuk/dashboard/oci/Containerfile.backend @@ -0,0 +1,36 @@ +FROM docker.io/library/python:3.11-slim-bullseye + +ARG APP_VERSION="devel" + +LABEL org.opencontainers.image.title="ZarrFuse Dashboard - Backend" +LABEL org.opencontainers.image.description="Backend for the ZarrFuse Dashboard." +LABEL org.opencontainers.image.version="${APP_VERSION}" +LABEL org.opencontainers.image.licenses="BSD-3-Clause" +LABEL org.opencontainers.image.source="https://github.com/geomop/zarr_fuse" +LABEL org.opencontainers.image.url="https://github.com/geomop/zarr_fuse" +LABEL org.opencontainers.image.authors="Geomop / Stepan Moc " +LABEL maintainer="Geomop / Stepan Moc " + +ENV PYTHONDONTWRITEBYTECODE=1 +ENV PYTHONUNBUFFERED=1 +ENV PIP_NO_CACHE_DIR=1 + +RUN groupadd -r dashboard && useradd -r -g dashboard -u 11233 -m -d /app dashboard + +# --- Install dashboard server --- +WORKDIR /app + +COPY --chown=dashboard:dashboard backend/ /app/ + +RUN python -m pip install --upgrade pip && \ + pip install . + +RUN pip install --no-cache-dir /app + +RUN chown -R dashboard:dashboard /app + +USER dashboard +WORKDIR /app +EXPOSE 8000 + +CMD ["uvicorn", "main:app", "--host", "0.0.0.0", "--port", "8000"] diff --git a/app/databuk/dashboard/oci/Containerfile.frontend b/app/databuk/dashboard/oci/Containerfile.frontend new file mode 100644 index 00000000..150d4f5d --- /dev/null +++ b/app/databuk/dashboard/oci/Containerfile.frontend @@ -0,0 +1,29 @@ +FROM docker.io/library/alpine:3.22.1 + +ARG APP_VERSION="devel" + +LABEL org.opencontainers.image.title="ZarrFuse Dashboard - Frontend" +LABEL org.opencontainers.image.description="Frontend for the ZarrFuse Dashboard." +LABEL org.opencontainers.image.version="${APP_VERSION}" +LABEL org.opencontainers.image.licenses="BSD-3-Clause" +LABEL org.opencontainers.image.source="https://github.com/geomop/zarr_fuse" +LABEL org.opencontainers.image.url="https://github.com/geomop/zarr_fuse" +LABEL org.opencontainers.image.authors="Geomop / Stepan Moc " +LABEL maintainer="Geomop / Stepan Moc " + +RUN addgroup -S nginx && adduser -S -D -H -h /nginx -u 11233 -G nginx nginx + +RUN apk add --no-cache nginx curl && \ + mkdir -p /var/www/html + +COPY --chown=nginx:nginx dist/ /var/www/html +COPY --chown=nginx:nginx oci/nginx.conf /etc/nginx + +RUN ln -sf /dev/stdout /var/log/nginx/access.log \ + && ln -sf /dev/stderr /var/log/nginx/error.log + +EXPOSE 8091 + +USER nginx + +CMD [ "nginx", "-g", "daemon off;" ] diff --git a/app/databuk/dashboard/oci/nginx.conf b/app/databuk/dashboard/oci/nginx.conf new file mode 100644 index 00000000..f6ad44ca --- /dev/null +++ b/app/databuk/dashboard/oci/nginx.conf @@ -0,0 +1,41 @@ +worker_processes 1; + +error_log /var/log/nginx/error.log warn; +pid /tmp/nginx.pid; + +events { + worker_connections 1024; +} + +http { + include /etc/nginx/mime.types; + default_type application/octet-stream; + + log_format main '$remote_addr - $remote_user [$time_local] "$request" ' + '$status $body_bytes_sent "$http_referer" ' + '"$http_user_agent" "$http_x_forwarded_for"'; + access_log /var/log/nginx/access.log main; + + sendfile on; + keepalive_timeout 65; + + gzip on; + gzip_types text/plain text/css application/javascript application/json image/svg+xml; + + server { + listen 8091; + server_name _; + + root /var/www/html; + index index.html; + + location / { + try_files $uri /index.html; + } + + location ~* \.(?:js|mjs|css|woff2?|ttf|eot|ico|png|jpg|jpeg|gif|svg)$ { + try_files $uri =404; + add_header Cache-Control "public, max-age=31536000, immutable"; + } + } +} diff --git a/app/databuk/dashboard/package-lock.json b/app/databuk/dashboard/package-lock.json new file mode 100644 index 00000000..6737894d --- /dev/null +++ b/app/databuk/dashboard/package-lock.json @@ -0,0 +1,6610 @@ +{ + "name": 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mode 100644 index 00000000..4049cea1 --- /dev/null +++ b/app/databuk/dashboard/package.json @@ -0,0 +1,37 @@ +{ + "name": "dashboard", + "private": true, + "version": "0.0.0", + "type": "module", + "scripts": { + "dev": "vite", + "build": "tsc -b && vite build", + "lint": "eslint .", + "preview": "vite preview" + }, + "dependencies": { + "@types/plotly.js": "^3.0.3", + "autoprefixer": "^10.4.21", + "lucide-react": "^0.542.0", + "plotly.js": "^3.1.0", + "postcss": "^8.5.6", + "react": "^19.1.1", + "react-dom": "^19.1.1", + "react-plotly.js": "^2.6.0", + "tailwindcss": "^3.4.17" + }, + "devDependencies": { + "@eslint/js": "^9.34.0", + "@types/react": "^19.1.12", + "@types/react-dom": "^19.1.8", + "@types/react-plotly.js": "^2.6.3", + "@vitejs/plugin-react-swc": "^4.0.1", + "eslint": "^9.34.0", + "eslint-plugin-react-hooks": "^5.2.0", + "eslint-plugin-react-refresh": "^0.4.20", + "globals": "^16.3.0", + "typescript": "~5.8.3", + "typescript-eslint": "^8.41.0", + "vite": "^7.1.3" + } +} diff --git a/app/databuk/dashboard/postcss.config.cjs b/app/databuk/dashboard/postcss.config.cjs new file mode 100644 index 00000000..33ad091d --- /dev/null +++ b/app/databuk/dashboard/postcss.config.cjs @@ -0,0 +1,6 @@ +module.exports = { + plugins: { + tailwindcss: {}, + autoprefixer: {}, + }, +} diff --git a/app/databuk/dashboard/public/vite.svg b/app/databuk/dashboard/public/vite.svg new file mode 100644 index 00000000..e7b8dfb1 --- /dev/null +++ b/app/databuk/dashboard/public/vite.svg @@ -0,0 +1 @@ + \ No newline at end of file diff --git a/app/databuk/dashboard/src/App.tsx b/app/databuk/dashboard/src/App.tsx new file mode 100644 index 00000000..75bc54b8 --- /dev/null +++ b/app/databuk/dashboard/src/App.tsx @@ -0,0 +1,376 @@ +import React, { useEffect, useRef, useState } from 'react'; +import { API_BASE_URL } from './api'; +import LogPanel from './components/LogPanel'; +import { Sidebar } from './components/sidebar'; +import type { ConfigData } from './components/sidebar/types/sidebar'; + +function App() { + const [isVisible, setIsVisible] = useState(true); + const [sidebarWidth, setSidebarWidth] = useState(420); + const [isResizing, setIsResizing] = useState(false); + const [configData, setConfigData] = useState(null); + const [configLoading, setConfigLoading] = useState(true); + const [configError, setConfigError] = useState(null); + const [selectedNode, setSelectedNode] = useState<{ storeName: string, nodePath: string } | null>(null); + const [nodeDetails, setNodeDetails] = useState(null); + const [nodeLoading, setNodeLoading] = useState(false); + const [nodeError, setNodeError] = useState(null); + const [expandedVariables, setExpandedVariables] = useState>(new Set()); + const [variableData, setVariableData] = useState<{ [key: string]: any }>({}); + const [showLogPanel, setShowLogPanel] = useState(false); + const sidebarRef = useRef(null); + + // Fetch configuration data + useEffect(() => { + const fetchConfig = async () => { + try { + setConfigLoading(true); + const response = await fetch(`${API_BASE_URL}/api/config/current`); + if (!response.ok) { + throw new Error(`HTTP error! status: ${response.status}`); + } + const data = await response.json(); + setConfigData(data); + setConfigError(null); + } catch (error) { + console.error('Failed to fetch config:', error); + setConfigError(error instanceof Error ? error.message : 'Failed to fetch configuration'); + } finally { + setConfigLoading(false); + } + }; + + fetchConfig(); + }, []); + + const handleMouseDown = (e: React.MouseEvent) => { + setIsResizing(true); + e.preventDefault(); + }; + + const handleNodeClick = async (storeName: string, nodePath: string) => { + console.log('Node clicked:', storeName, nodePath); + setSelectedNode({ storeName, nodePath }); + setNodeLoading(true); + setNodeError(null); + + try { + const response = await fetch(`${API_BASE_URL}/api/s3/node/${storeName}/${nodePath}`); + if (!response.ok) { + throw new Error(`HTTP error! status: ${response.status}`); + } + const data = await response.json(); + setNodeDetails(data.node_details); + } catch (error) { + console.error('Failed to fetch node details:', error); + setNodeError(error instanceof Error ? error.message : 'Failed to fetch node details'); + } finally { + setNodeLoading(false); + } + }; + + const handleLogClick = () => { + setShowLogPanel(true); + }; + + useEffect(() => { + const handleMouseMove = (e: MouseEvent) => { + if (!isResizing) return; + + const newWidth = e.clientX; + if (newWidth >= 200 && newWidth <= 600) { + setSidebarWidth(newWidth); + } + }; + + const handleMouseUp = () => { + setIsResizing(false); + }; + + if (isResizing) { + document.addEventListener('mousemove', handleMouseMove); + document.addEventListener('mouseup', handleMouseUp); + } + + return () => { + document.removeEventListener('mousemove', handleMouseMove); + document.removeEventListener('mouseup', handleMouseUp); + }; + }, [isResizing]); + + // Handle variable click - toggle expand/collapse + const handleVariableClick = async (variableName: string, variablePath: string) => { + if (!selectedNode) return; + + // Toggle expanded state + const newExpanded = new Set(expandedVariables); + if (newExpanded.has(variableName)) { + newExpanded.delete(variableName); + setExpandedVariables(newExpanded); + return; + } else { + newExpanded.add(variableName); + setExpandedVariables(newExpanded); + } + + // If data already loaded, just show it + if (variableData[variableName] && !variableData[variableName].loading) { + return; + } + + console.log(`🔍 Clicked variable: ${variableName} at ${variablePath}`); + + try { + setVariableData(prev => ({ ...prev, [variableName]: { loading: true } })); + + // Call backend to get variable data + console.log(`🔍 Fetching: /api/s3/variable/${selectedNode.storeName}/${variablePath}`); + const response = await fetch(`${API_BASE_URL}/api/s3/variable/${selectedNode.storeName}/${variablePath}`); + + if (!response.ok) { + throw new Error(`Failed to fetch variable data: ${response.statusText}`); + } + + const data = await response.json(); + console.log('Variable data:', data); + + setVariableData(prev => ({ ...prev, [variableName]: data })); + } catch (error) { + console.error('Error loading variable data:', error); + setVariableData(prev => ({ + ...prev, [variableName]: { + name: variableName, + path: variablePath, + error: `Failed to load data: ${error instanceof Error ? error.message : 'Unknown error'}` + } + })); + } + }; + + return ( +
+ {/* Sidebar */} + {isVisible && ( +
+ setIsVisible(false)} + configData={configData} + configLoading={configLoading} + configError={configError} + onNodeClick={handleNodeClick} + onLogClick={handleLogClick} + /> + + {/* Resize Handle */} +
+
+ )} + + {/* Content Area - Main Panel */} +
+ {/* Show Sidebar Button */} + {!isVisible && ( + + )} + + {/* Node Details Content */} + {selectedNode ? ( +
+ {/* Header */} +
+
+

+ Node '{selectedNode.nodePath.split('/').pop()}' Overview +

+

+ xarray DataSet • {selectedNode.storeName} +

+
+
+ + {/* Loading State */} + {nodeLoading && ( +
+
+
+

Loading node details...

+
+
+ )} + + {/* Error State */} + {nodeError && ( +
+
+
+ ! +
+ Error loading node details +
+

{nodeError}

+
+ )} + + {/* Node Details */} + {nodeDetails && !nodeLoading && ( +
+ {/* ATTRS */} + {Object.keys(nodeDetails.attrs).length > 0 && ( +
+

ATTRS

+
+ {Object.entries(nodeDetails.attrs).map(([key, value]) => ( +
+ {key}: + {String(value)} +
+ ))} +
+
+ )} + + {/* COORDS */} + {Object.keys(nodeDetails.coords).length > 0 && ( +
+

COORDS

+
+ {Object.entries(nodeDetails.coords).map(([name, coord]: [string, any]) => ( +
+

{name}

+ {coord.values && ( +
+
+ values: + [{coord.values.sample_data?.slice(0, 5).join(', ')}...] +
+
+ min: + {coord.values.min} + max: + {coord.values.max} + # values: + {coord.values.count} +
+
+ )} +
+ ))} +
+
+ )} + + {/* VARS - ACCORDION STYLE */} + {Object.keys(nodeDetails.vars).length > 0 && ( +
+

Variables ({Object.keys(nodeDetails.vars).length})

+
+ {Object.entries(nodeDetails.vars).map(([name, variable]: [string, any]) => { + const isExpanded = expandedVariables.has(name); + const data = variableData[name]; + + return ( +
+ {/* Variable Header - Clickable */} +
handleVariableClick(name, variable.path || `${selectedNode?.nodePath ? selectedNode.nodePath + '/' : ''}${name}`)} + > +
+
+ + + +
+

{name}

+
+
+ {isExpanded ? 'Click to collapse' : 'Click to expand'} +
+
+ + {/* Variable Details - Expandable */} + {isExpanded && ( +
+ {data?.loading && ( +
+
+

Loading variable data...

+
+ )} + + {data?.error && ( +
+

Error: {data.error}

+
+ )} + + {data && !data.loading && !data.error && ( +
+

Path: {data.path}

+ {data.shape && ( +

Shape: [{data.shape.join(', ')}]

+ )} + {data.dtype && ( +

Type: {data.dtype}

+ )} + {data.size && ( +

Size: {data.size.toLocaleString()} elements

+ )} + {(data.min !== undefined && data.max !== undefined) && ( +

Range: {data.min} to {data.max}

+ )} + {data.sample_data && ( +
+

Sample Data:

+ 
+                                          {JSON.stringify(data.sample_data, null, 2)}
+
+
+ )} +
+ )} +
+ )} +
+ ); + })} +
+
+ )} + +
+ )} +
+ ) : ( +
+

Content Area

+

Select a node from the sidebar to view its details.

+
+ )} +
+ + {/* Log Panel */} + setShowLogPanel(false)} + /> +
+ ); +} + +export default App; diff --git a/app/databuk/dashboard/src/api.ts b/app/databuk/dashboard/src/api.ts new file mode 100644 index 00000000..3b1f873b --- /dev/null +++ b/app/databuk/dashboard/src/api.ts @@ -0,0 +1 @@ +export const API_BASE_URL = import.meta.env.VITE_API_URL || 'http://localhost:8000'; diff --git a/app/databuk/dashboard/src/components/LogPanel.tsx b/app/databuk/dashboard/src/components/LogPanel.tsx new file mode 100644 index 00000000..8d63d522 --- /dev/null +++ b/app/databuk/dashboard/src/components/LogPanel.tsx @@ -0,0 +1,180 @@ +import { AlertCircle, CheckCircle, Clock, RefreshCw, X } from 'lucide-react'; +import React, { useEffect, useState } from 'react'; +import { API_BASE_URL } from '../api'; + +interface LogEntry { + id: string; + timestamp: string; + level: 'info' | 'warning' | 'error'; + category: 'backend'; + message: string; + resolved?: boolean; +} + +interface LogPanelProps { + show: boolean; + onClose: () => void; +} + +const LogPanel: React.FC = ({ show, onClose }) => { + const [logs, setLogs] = useState([]); + const [loading, setLoading] = useState(false); + const [filter] = useState<'backend'>('backend'); + + // No mock data; will be populated from API later + + useEffect(() => { + if (show) { + setLoading(true); + // Fetch logs (errors and warnings only) from backend + fetch(`${API_BASE_URL}/api/logs`) + .then(async (res) => { + if (!res.ok) throw new Error(`HTTP ${res.status}`); + const data = await res.json(); + const items = Array.isArray(data.logs) ? data.logs : []; + // ensure category is 'backend' and level is either 'error' or 'warning' + const normalized = items + .filter((l: any) => l && (l.level === 'error' || l.level === 'warning')) + .map((l: any) => ({ + id: String(l.id ?? `${l.timestamp}-${Math.random()}`), + timestamp: String(l.timestamp ?? new Date().toISOString()), + level: l.level as 'error' | 'warning' | 'info', + category: 'backend' as const, + message: String(l.message ?? ''), + resolved: Boolean(l.resolved ?? false) + })); + setLogs(normalized); + }) + .catch(() => setLogs([])) + .finally(() => setLoading(false)); + } + }, [show]); + + const filteredLogs = logs.filter(l => l.category === filter); + + const getLevelIcon = (level: string) => { + switch (level) { + case 'error': + return ; + case 'warning': + return ; + default: + return ; + } + }; + + const getLevelColor = (level: string) => { + switch (level) { + case 'error': + return 'border-red-200 bg-red-50'; + case 'warning': + return 'border-yellow-200 bg-yellow-50'; + default: + return 'border-green-200 bg-green-50'; + } + }; + + if (!show) return null; + + return ( +
+ {/* Overlay */} +
+ + {/* Log Panel */} +
+ {/* Header */} +
+
+
+
+ +
+
+

Logs

+

System and data monitoring

+
+
+ +
+ + {/* Backend-only badge (keeps previous tab look without interactivity) */} +
+ Backend +
+
+ + {/* Content */} +
+ {loading ? ( +
+
+ +

Loading logs...

+
+
+ ) : ( +
+ {filteredLogs.length === 0 ? ( +
+ +

No logs yet

+
+ ) : ( + filteredLogs.map((log) => ( +
+
+
+ {getLevelIcon(log.level)} +
+
+ + {log.category} + + + {new Date(log.timestamp).toLocaleString()} + + {log.resolved && ( + + RESOLVED + + )} +
+

{log.message}

+
+
+ + {/* No resolve action for backend-only logs */} +
+
+ )) + )} +
+ )} +
+ + {/* Footer Stats */} +
+
+ Total: {logs.length} logs +
+
+
+
+ ); +}; + +export default LogPanel; diff --git a/app/databuk/dashboard/src/components/sidebar/Sidebar.tsx b/app/databuk/dashboard/src/components/sidebar/Sidebar.tsx new file mode 100644 index 00000000..5142edb6 --- /dev/null +++ b/app/databuk/dashboard/src/components/sidebar/Sidebar.tsx @@ -0,0 +1,333 @@ +import { AlertCircle, BarChart3, ChevronDown, ChevronRight, Clock, Database, Folder, RefreshCw, X } from 'lucide-react'; +import React, { useCallback, useEffect, useState } from 'react'; +import { API_BASE_URL } from '../../api'; +import type { SidebarProps } from './types/sidebar'; + +// Types for S3 data +interface S3Store { + name: string; + path: string; + type: string; + structure?: any; + error?: string; +} + +interface S3Structure { + status: string; + bucket_name: string; + total_stores: number; + stores: S3Store[]; +} + +interface S3Response { + status: string; + structure: S3Structure; +} + +const Sidebar: React.FC = ({ + onClose, + configData, + configLoading, + configError, + onNodeClick, + onLogClick +}) => { + + // S3 data state + const [s3Data, setS3Data] = useState(null); + const [s3Loading, setS3Loading] = useState(false); + const [s3Error, setS3Error] = useState(null); + + // Reload/progress state + const [lastFetchAt, setLastFetchAt] = useState(null); + const [progress, setProgress] = useState(0); + + // Tree expand/collapse state (paths of expanded groups) + const [expandedPaths, setExpandedPaths] = useState>(new Set(['root'])); + const toggleExpand = useCallback((path: string) => { + setExpandedPaths((prev) => { + const next = new Set(prev); + if (next.has(path)) next.delete(path); else next.add(path); + return next; + }); + }, []); + + const reloadIntervalSec = configData?.endpoint?.Reload_interval ?? 60; + + // Fetch S3 data (refactored to component scope) + const fetchS3Data = useCallback(async () => { + setS3Loading(true); + setS3Error(null); + try { + const response = await fetch(`${API_BASE_URL}/api/s3/structure`); + if (!response.ok) { + throw new Error(`HTTP error! status: ${response.status}`); + } + const data: S3Response = await response.json(); + setS3Data(data); + } catch (error) { + setS3Error(error instanceof Error ? error.message : 'Failed to fetch S3 data'); + } finally { + setS3Loading(false); + setLastFetchAt(Date.now()); + setProgress(0); + } + }, []); + + // Initial fetch on mount + useEffect(() => { + fetchS3Data(); + }, [fetchS3Data]); + + // Progress timer tied to Reload_interval; auto-refetch when completes + useEffect(() => { + if (!lastFetchAt) return; + let cancelled = false; + const tickMs = 1000; + const totalMs = Math.max(1, reloadIntervalSec) * 1000; + + const intervalId = setInterval(() => { + if (cancelled) return; + const elapsed = Date.now() - lastFetchAt; + const pct = Math.min(100, (elapsed / totalMs) * 100); + setProgress(pct); + if (elapsed >= totalMs) { + // Auto refetch and reset timer + fetchS3Data(); + } + }, tickMs); + + return () => { + cancelled = true; + clearInterval(intervalId); + }; + }, [lastFetchAt, reloadIntervalSec, fetchS3Data]); + + // Render tree structure recursively + const renderTreeItem = (item: any, level: number = 0, parentPath: string = '', storeName: string = '') => { + const indent = level * 16; + const itemPath = parentPath ? `${parentPath}/${item.name}` : item.name; + + console.log('Rendering item:', item); // Debug log + + if (item.type === 'group') { + const groupsOnly = (item.children || []).filter((c: any) => c.type === 'group'); + const isExpanded = expandedPaths.has(itemPath); + return ( +
+
onNodeClick?.(storeName, itemPath)} + > + {groupsOnly.length > 0 ? ( + + ) : ( + + )} + + {item.name} +
+ {isExpanded && groupsOnly.length > 0 && ( +
+ {groupsOnly.map((child: any, index: number) => ( +
+ {renderTreeItem(child, level + 1, itemPath, storeName)} +
+ ))} +
+ )} +
+ ); + } else if (item.type === 'array') { + // Hide arrays (variables) from the tree view + return null; + } + return null; + }; + + // Status colors based on loading/error/content + const hasStoreError = !!(s3Data?.structure?.stores?.some((s) => s.error)); + const statusColor = s3Loading ? 'bg-yellow-400' : (s3Error || hasStoreError) ? 'bg-red-500' : 'bg-green-400'; + + return ( + + ); +}; + +export default Sidebar; diff --git a/app/databuk/dashboard/src/components/sidebar/index.ts b/app/databuk/dashboard/src/components/sidebar/index.ts new file mode 100644 index 00000000..3bd5572f --- /dev/null +++ b/app/databuk/dashboard/src/components/sidebar/index.ts @@ -0,0 +1,4 @@ +export { default as Sidebar } from './Sidebar'; +export type { SidebarProps } from './types/sidebar'; + + diff --git a/app/databuk/dashboard/src/components/sidebar/types/sidebar.ts b/app/databuk/dashboard/src/components/sidebar/types/sidebar.ts new file mode 100644 index 00000000..c3b29555 --- /dev/null +++ b/app/databuk/dashboard/src/components/sidebar/types/sidebar.ts @@ -0,0 +1,27 @@ +export interface ConfigData { + status: string; + endpoint: { + Reload_interval: number; + Schema_file: string; + STORE_URL: string; + S3_ENDPOINT_URL: string; + S3_access_key: string; + S3_secret_key: string; + S3_region: string; + S3_use_ssl: boolean; + S3_verify_ssl: boolean; + Description: string; + Store_type: string; + Version: string; + }; +} + +export interface SidebarProps { + onClose: () => void; + configData: ConfigData | null; + configLoading: boolean; + configError: string | null; + onNodeClick?: (storeName: string, nodePath: string) => void; + onLogClick?: () => void; +} + diff --git a/app/databuk/dashboard/src/index.css b/app/databuk/dashboard/src/index.css new file mode 100644 index 00000000..752e3154 --- /dev/null +++ b/app/databuk/dashboard/src/index.css @@ -0,0 +1,175 @@ +@tailwind base; +@tailwind components; +@tailwind utilities; + +/* Plotly.js Override Styles */ +.js-plotly-plot .plotly .main-svg { + background-color: transparent !important; +} + +.js-plotly-plot .plotly .bg { + background-color: transparent !important; +} + +.js-plotly-plot .plotly .plot-container { + background-color: transparent !important; +} + +.js-plotly-plot .plotly .svg-container { + background-color: transparent !important; +} + +/* Remove Plotly's default white background */ +.js-plotly-plot { + background-color: transparent !important; +} + +/* Custom class for transparent plots */ +.plotly-transparent { + background-color: transparent !important; +} + +.plotly-transparent .js-plotly-plot { + background-color: transparent !important; +} + +/* Custom scrollbar styles */ +.scrollbar-thin { + scrollbar-width: thin; + scrollbar-color: #d1d5db #f3f4f6; +} + +.scrollbar-thin::-webkit-scrollbar { + width: 8px; +} + +.scrollbar-thin::-webkit-scrollbar-track { + background: #f3f4f6; + border-radius: 4px; +} + +.scrollbar-thin::-webkit-scrollbar-thumb { + background: #d1d5db; + border-radius: 4px; + transition: background-color 0.2s; +} + +.scrollbar-thin::-webkit-scrollbar-thumb:hover { + background: #9ca3af; +} + +/* Smooth scrolling for the entire page */ +html { + scroll-behavior: smooth; +} + +/* Better focus states */ +*:focus { + outline: 2px solid #3b82f6; + outline-offset: 2px; +} + +/* Improved hover transitions */ +.transition-all { + transition-property: all; + transition-timing-function: cubic-bezier(0.4, 0, 0.2, 1); + transition-duration: 200ms; +} + +/* Overflow handling */ +.overflow-safe { + overflow: hidden; +} + +.overflow-safe:hover { + overflow: visible; +} + +/* Text overflow prevention */ +.text-overflow-safe { + overflow: hidden; + text-overflow: ellipsis; + white-space: nowrap; +} + +/* Better button interactions */ +.button-interactive { + transition: all 0.2s cubic-bezier(0.4, 0, 0.2, 1); +} + +.button-interactive:hover { + transform: translateY(-1px); +} + +.button-interactive:active { + transform: translateY(0); +} + +/* Enhanced shadows */ +.shadow-enhanced { + box-shadow: 0 4px 6px -1px rgba(0, 0, 0, 0.1), 0 2px 4px -1px rgba(0, 0, 0, 0.06); +} + +.shadow-enhanced:hover { + box-shadow: 0 10px 15px -3px rgba(0, 0, 0, 0.1), 0 4px 6px -2px rgba(0, 0, 0, 0.05); +} + +:root { + font-family: system-ui, Avenir, Helvetica, Arial, sans-serif; + line-height: 1.5; + font-weight: 400; +} + +a { + font-weight: 500; + color: #646cff; + text-decoration: inherit; +} +a:hover { + color: #535bf2; +} + +body { + margin: 0; + display: flex; + place-items: center; + min-width: 320px; + min-height: 100vh; +} + +h1 { + font-size: 3.2em; + line-height: 1.1; +} + +button { + border-radius: 8px; + border: 1px solid transparent; + padding: 0.6em 1.2em; + font-size: 1em; + font-weight: 500; + font-family: inherit; + background-color: #1a1a1a; + cursor: pointer; + transition: border-color 0.25s; +} +button:hover { + border-color: #646cff; +} +button:focus, +button:focus-visible { + outline: 4px auto -webkit-focus-ring-color; +} + +@media (prefers-color-scheme: light) { + :root { + color: #213547; + background-color: #ffffff; + } + a:hover { + color: #747bff; + } + button { + background-color: #f9f9f9; + } +} diff --git a/app/databuk/dashboard/src/main.tsx b/app/databuk/dashboard/src/main.tsx new file mode 100644 index 00000000..bef5202a --- /dev/null +++ b/app/databuk/dashboard/src/main.tsx @@ -0,0 +1,10 @@ +import { StrictMode } from 'react' +import { createRoot } from 'react-dom/client' +import './index.css' +import App from './App.tsx' + +createRoot(document.getElementById('root')!).render( + + + , +) diff --git a/app/databuk/dashboard/src/vite-env.d.ts b/app/databuk/dashboard/src/vite-env.d.ts new file mode 100644 index 00000000..11f02fe2 --- /dev/null +++ b/app/databuk/dashboard/src/vite-env.d.ts @@ -0,0 +1 @@ +/// diff --git a/app/databuk/dashboard/tailwind.config.js b/app/databuk/dashboard/tailwind.config.js new file mode 100644 index 00000000..1c3b7e1b --- /dev/null +++ b/app/databuk/dashboard/tailwind.config.js @@ -0,0 +1,11 @@ +/** @type {import('tailwindcss').Config} */ +module.exports = { + content: [ + "./index.html", + "./src/**/*.{js,ts,jsx,tsx}", + ], + theme: { + extend: {}, + }, + plugins: [], +} diff --git a/app/databuk/dashboard/test_s3_zarr.py b/app/databuk/dashboard/test_s3_zarr.py new file mode 100644 index 00000000..f43816e0 --- /dev/null +++ b/app/databuk/dashboard/test_s3_zarr.py @@ -0,0 +1,358 @@ +#!/usr/bin/env python3 +""" +S3 Test Script for Dashboard +Creates and manages Zarr stores in CESNET S3 bucket using common S3 configuration +""" + +import os +import sys +import zarr +import s3fs +import fsspec +import numpy as np +import traceback +from pathlib import Path +from dotenv import load_dotenv + +# Import common S3 configuration from backend +sys.path.append('backend') + +# Load environment variables +load_dotenv() + +class S3ZarrTester: + def __init__(self): + self.bucket_name = os.getenv("S3_BUCKET_NAME", "test-zarr-storage") + self.endpoint_url = os.getenv("S3_ENDPOINT_URL", "https://s3.cl4.du.cesnet.cz") + self.access_key = os.getenv("S3_ACCESS_KEY") + self.secret_key = os.getenv("S3_SECRET_KEY") + + if not all([self.access_key, self.secret_key]): + raise ValueError("S3_ACCESS_KEY and S3_SECRET_KEY must be set in .env file") + + self.fs = None + self.connect() + + def connect(self): + """Connect to S3 using common S3 configuration""" + # Use fsspec directly like backend + storage_options = dict( + key=self.access_key, + secret=self.secret_key, + client_kwargs=dict(endpoint_url=self.endpoint_url), + config_kwargs={ + "s3": { + "payload_signing_enabled": False, + "addressing_style": "path" + }, + "retries": {"max_attempts": 5, "mode": "standard"}, + "connect_timeout": 20, + "read_timeout": 60, + "request_checksum_calculation": "when_required", + "response_checksum_validation": "when_required", + }, + ) + + self.fs = fsspec.filesystem('s3', **storage_options) + print(f"✅ Connected to S3: {self.endpoint_url}") + + def create_test_tree(self, store_path="dashboard-test/structure_tree.zarr"): + """Create a test Zarr tree structure""" + print(f"🌳 Creating test tree at: s3://{self.bucket_name}/{store_path}") + + # Use fsspec.get_mapper with zarr_fuse storage_options pattern + storage_options = dict( + key=self.access_key, + secret=self.secret_key, + client_kwargs=dict(endpoint_url=self.endpoint_url), + config_kwargs={ + "s3": { + "payload_signing_enabled": False, + "addressing_style": "path" + }, + "retries": {"max_attempts": 5, "mode": "standard"}, + "connect_timeout": 20, + "read_timeout": 60, + "request_checksum_calculation": "when_required", + "response_checksum_validation": "when_required", + }, + ) + + print(f"🔧 Using storage options: {storage_options}") + store = fsspec.get_mapper(f"s3://{self.bucket_name}/{store_path}", **storage_options) + print(f"✅ Created mapper for: s3://{self.bucket_name}/{store_path}") + + # Create root group + root = zarr.open_group(store, mode='w') + print(f"✅ Created root group") + + # Quick low-level write test to validate S3 put + try: + test_key = f"{self.bucket_name}/dashboard-test/.write_check.tmp" + with self.fs.open(test_key, 'wb') as fh: + fh.write(b'hello') + print(f"✅ Low-level write OK: s3://{test_key}") + self.fs.rm(test_key) + except Exception as e: + print(f"❌ Low-level write FAILED: {e}") + traceback.print_exc() + + # Add root data (with detailed error reporting) + try: + print(f"📄 Creating temperature array...") + arr = zarr.open_array(store, path='temperature', mode='w', shape=(3,), chunks=(3,), dtype=np.float64, compressor=None) + arr[:] = np.array([280.0, 281.0, 282.0], dtype=np.float64) + print(f"✅ Created temperature array") + except Exception as e: + print(f"❌ Failed to create 'temperature' array: {e}") + traceback.print_exc() + raise + + try: + print(f"📄 Creating time array...") + arr = zarr.open_array(store, path='time', mode='w', shape=(3,), chunks=(3,), dtype=np.int64, compressor=None) + arr[:] = np.array([1000, 1001, 1002], dtype=np.int64) + print(f"✅ Created time array") + except Exception as e: + print(f"❌ Failed to create 'time' array: {e}") + traceback.print_exc() + raise + + # Create child_1 group + print(f"📁 Creating child_1 group...") + child1 = root.create_group('child_1') + try: + arr = zarr.open_array(store, path='child_1/temperature', mode='w', shape=(2,), chunks=(2,), dtype=np.float64, compressor=None) + arr[:] = np.array([283.0, 284.0], dtype=np.float64) + arr = zarr.open_array(store, path='child_1/time', mode='w', shape=(2,), chunks=(2,), dtype=np.int64, compressor=None) + arr[:] = np.array([1003, 1004], dtype=np.int64) + except Exception as e: + print(f"❌ Failed to create arrays under 'child_1': {e}") + traceback.print_exc() + raise + + # Create child_1/child_3 group + print(f"📁 Creating child_3 group...") + child3 = child1.create_group('child_3') + try: + arr = zarr.open_array(store, path='child_1/child_3/temperature', mode='w', shape=(1,), chunks=(1,), dtype=np.float64, compressor=None) + arr[:] = np.array([285.0], dtype=np.float64) + arr = zarr.open_array(store, path='child_1/child_3/time', mode='w', shape=(1,), chunks=(1,), dtype=np.int64, compressor=None) + arr[:] = np.array([1005], dtype=np.int64) + except Exception as e: + print(f"❌ Failed to create arrays under 'child_3': {e}") + traceback.print_exc() + raise + + # Create child_2 group + print(f"📁 Creating child_2 group...") + child2 = root.create_group('child_2') + try: + arr = zarr.open_array(store, path='child_2/temperature', mode='w', shape=(3,), chunks=(3,), dtype=np.float64, compressor=None) + arr[:] = np.array([286.0, 287.0, 288.0], dtype=np.float64) + arr = zarr.open_array(store, path='child_2/time', mode='w', shape=(3,), chunks=(3,), dtype=np.int64, compressor=None) + arr[:] = np.array([1006, 1007, 1008], dtype=np.int64) + except Exception as e: + print(f"❌ Failed to create arrays under 'child_2': {e}") + traceback.print_exc() + raise + + # Add metadata + root.attrs['description'] = 'Test tree structure for dashboard' + root.attrs['created_by'] = 'dashboard-test-script' + print(f"✅ Added metadata") + + # Debug: verify root is a group and print attributes + try: + test_root = zarr.open_group(store, mode='r') + print(f"🔎 Root opened as group successfully: {isinstance(test_root, zarr.hierarchy.Group)}") + print(f"🔎 Root attrs: {dict(test_root.attrs)}") + except Exception as e: + print(f"❌ Could not open root as group: {e}") + + # Debug: check Zarr marker files at root (v2 .zgroup or v3 zarr.json) + try: + marker_v2 = store.get('.zgroup', None) is not None + marker_v3 = store.get('zarr.json', None) is not None + print(f"🔎 Marker files - .zgroup: {marker_v2}, zarr.json: {marker_v3}") + except Exception as e: + print(f"⚠️ Could not check marker files: {e}") + + # Debug: recursively count groups and arrays + def _count_nodes(group) -> tuple[int, int]: + num_groups = 1 # count this group + num_arrays = 0 + for name in group.keys(): + node = group[name] + if hasattr(node, 'shape'): + num_arrays += 1 + else: + g, a = _count_nodes(node) + num_groups += g + num_arrays += a + return num_groups, num_arrays + + try: + g_count, a_count = _count_nodes(root) + print(f"📊 Node counts -> groups: {g_count}, arrays: {a_count}") + except Exception as e: + print(f"⚠️ Could not count nodes: {e}") + + # Debug: list S3 paths directly (top-level and one level deep) + try: + base = f"{self.bucket_name}/{store_path}" + top = self.fs.ls(base, detail=True) + print(f"📁 Top-level in s3://{base} ({len(top)} items):") + for t in top: + print(f" - {t['name']} ({t['type']})") + # List immediate subdirectories + for t in top: + if t['type'] == 'directory': + sub = self.fs.ls(t['name'], detail=True) + print(f" 📂 {t['name']} ({len(sub)} items):") + for s in sub[:20]: # limit spam + print(f" - {s['name']} ({s['type']})") + except Exception as e: + print(f"⚠️ Could not list S3 paths for verification: {e}") + + print(f"✅ Test tree created successfully!") + print(f"📊 Root group keys: {list(root.keys())}") + return store_path + + def list_bucket_contents(self): + """List all contents in the bucket""" + print(f"📁 Bucket contents: s3://{self.bucket_name}") + try: + files = self.fs.ls(self.bucket_name, detail=True) + for file in files: + print(f" {'📁' if file['type'] == 'directory' else '📄'} {file['name']}") + + # If it's a directory, list its contents too + if file['type'] == 'directory': + try: + sub_files = self.fs.ls(file['name'], detail=True) + for sub_file in sub_files: + print(f" {'📁' if sub_file['type'] == 'directory' else '📄'} {sub_file['name']}") + except Exception as e: + print(f" ❌ Error listing subdirectory: {e}") + except Exception as e: + print(f"❌ Error listing bucket: {e}") + + def read_test_tree(self, store_path="dashboard-test/structure_tree.zarr"): + """Read and display the test tree structure using zarr_fuse pattern""" + print(f"📖 Reading test tree from: s3://{self.bucket_name}/{store_path}") + + try: + # Use fsspec.get_mapper directly like in create_test_tree + storage_options = dict( + key=self.access_key, + secret=self.secret_key, + client_kwargs=dict(endpoint_url=self.endpoint_url), + config_kwargs={ + "s3": { + "payload_signing_enabled": False, + "addressing_style": "path" + }, + "retries": {"max_attempts": 5, "mode": "standard"}, + "connect_timeout": 20, + "read_timeout": 60, + "request_checksum_calculation": "when_required", + "response_checksum_validation": "when_required", + }, + ) + + store = fsspec.get_mapper(f"s3://{self.bucket_name}/{store_path}", **storage_options) + root = zarr.open_group(store, mode='r') + + print("📊 Tree structure:") + self._print_group_structure(root, level=0) + + except Exception as e: + print(f"❌ Error reading tree: {e}") + traceback.print_exc() + + def _print_group_structure(self, group, level=0): + """Recursively print group structure""" + indent = " " * level + + # Print datasets and groups + for name in group.keys(): + dataset = group[name] + if hasattr(dataset, 'shape'): + print(f"{indent}📄 {name}: shape={dataset.shape}, dtype={dataset.dtype}") + else: + print(f"{indent}📁 {name}/") + self._print_group_structure(dataset, level + 1) + + def cleanup_bucket(self): + """Remove all test data from bucket""" + print(f"🧹 Cleaning up bucket: s3://{self.bucket_name}") + + try: + # List all files + files = self.fs.ls(self.bucket_name, detail=True) + + # Remove test directories + for file in files: + if file['type'] == 'directory' and ('dashboard-test' in file['name'] or 'test' in file['name']): + print(f"🗑️ Removing: {file['name']}") + self.fs.rm(file['name'], recursive=True) + + print("✅ Bucket cleanup completed!") + + except Exception as e: + print(f"❌ Error during cleanup: {e}") + +def main(): + """Main function""" + print("🚀 S3 Zarr Test Script for Dashboard") + print("=" * 50) + + try: + tester = S3ZarrTester() + + # Show current bucket contents + print("\n📋 Current bucket contents:") + tester.list_bucket_contents() + + # Create test tree + print("\n🔨 Creating test tree...") + store_path = tester.create_test_tree() + + # Read and verify + print("\n📖 Verifying created tree...") + tester.read_test_tree(store_path) + + print("\n✅ Test completed successfully!") + print(f"📝 Test data available at: s3://{tester.bucket_name}/{store_path}") + + except Exception as e: + print(f"❌ Error: {e}") + sys.exit(1) + +if __name__ == "__main__": + import argparse + + parser = argparse.ArgumentParser(description="S3 Zarr Test Script") + parser.add_argument("--cleanup", action="store_true", help="Clean up test data from bucket") + parser.add_argument("--list", action="store_true", help="List bucket contents") + parser.add_argument("--read", type=str, help="Read specific store path") + + args = parser.parse_args() + + try: + tester = S3ZarrTester() + + if args.cleanup: + tester.cleanup_bucket() + elif args.list: + tester.list_bucket_contents() + elif args.read: + tester.read_test_tree(args.read) + else: + main() + + except Exception as e: + print(f"❌ Error: {e}") + traceback.print_exc() + sys.exit(1) diff --git a/app/databuk/dashboard/tsconfig.app.json b/app/databuk/dashboard/tsconfig.app.json new file mode 100644 index 00000000..227a6c67 --- /dev/null +++ b/app/databuk/dashboard/tsconfig.app.json @@ -0,0 +1,27 @@ +{ + "compilerOptions": { + "tsBuildInfoFile": "./node_modules/.tmp/tsconfig.app.tsbuildinfo", + "target": "ES2022", + "useDefineForClassFields": true, + "lib": ["ES2022", "DOM", "DOM.Iterable"], + "module": "ESNext", + "skipLibCheck": true, + + /* Bundler mode */ + "moduleResolution": "bundler", + "allowImportingTsExtensions": true, + "verbatimModuleSyntax": true, + "moduleDetection": "force", + "noEmit": true, + "jsx": "react-jsx", + + /* Linting */ + "strict": true, + "noUnusedLocals": true, + "noUnusedParameters": true, + "erasableSyntaxOnly": true, + "noFallthroughCasesInSwitch": true, + "noUncheckedSideEffectImports": true + }, + "include": ["src"] +} diff --git a/app/databuk/dashboard/tsconfig.json b/app/databuk/dashboard/tsconfig.json new file mode 100644 index 00000000..1ffef600 --- /dev/null +++ b/app/databuk/dashboard/tsconfig.json @@ -0,0 +1,7 @@ +{ + "files": [], + "references": [ + { "path": "./tsconfig.app.json" }, + { "path": "./tsconfig.node.json" } + ] +} diff --git a/app/databuk/dashboard/tsconfig.node.json b/app/databuk/dashboard/tsconfig.node.json new file mode 100644 index 00000000..f85a3990 --- /dev/null +++ b/app/databuk/dashboard/tsconfig.node.json @@ -0,0 +1,25 @@ +{ + "compilerOptions": { + "tsBuildInfoFile": "./node_modules/.tmp/tsconfig.node.tsbuildinfo", + "target": "ES2023", + "lib": ["ES2023"], + "module": "ESNext", + "skipLibCheck": true, + + /* Bundler mode */ + "moduleResolution": "bundler", + "allowImportingTsExtensions": true, + "verbatimModuleSyntax": true, + "moduleDetection": "force", + "noEmit": true, + + /* Linting */ + "strict": true, + "noUnusedLocals": true, + "noUnusedParameters": true, + "erasableSyntaxOnly": true, + "noFallthroughCasesInSwitch": true, + "noUncheckedSideEffectImports": true + }, + "include": ["vite.config.ts"] +} diff --git a/app/databuk/dashboard/vite.config.ts b/app/databuk/dashboard/vite.config.ts new file mode 100644 index 00000000..d696d81c --- /dev/null +++ b/app/databuk/dashboard/vite.config.ts @@ -0,0 +1,7 @@ +import react from '@vitejs/plugin-react-swc' +import { defineConfig } from 'vite' + +// https://vite.dev/config/ +export default defineConfig({ + plugins: [react()], +}) diff --git a/app/databuk/ingress_server/charts/ingress-server/templates/deployment.yaml b/app/databuk/ingress_server/charts/ingress-server/templates/deployment.yaml index b1246e01..bef23604 100644 --- a/app/databuk/ingress_server/charts/ingress-server/templates/deployment.yaml +++ b/app/databuk/ingress_server/charts/ingress-server/templates/deployment.yaml @@ -35,19 +35,9 @@ spec: {{- toYaml .Values.resources | nindent 12 }} securityContext: {{- toYaml .Values.securityContext.container | nindent 12 }} - env: - - name: S3_ENDPOINT_URL - value: {{ required "S3_ENDPOINT_URL needs to be set" .Values.deployment.secrets.s3.endpointUrl | quote }} - - name: S3_ACCESS_KEY - value: {{ required "S3_ACCESS_KEY needs to be set" .Values.deployment.secrets.s3.accessKey | quote }} - - name: S3_SECRET_KEY - value: {{ required "S3_SECRET_KEY needs to be set" .Values.deployment.secrets.s3.secretKey | quote }} - - name: S3_STORE_URL - value: {{ required "S3_STORE_URL needs to be set" .Values.deployment.secrets.s3.storeUrl | quote }} - - name: BASIC_AUTH_USERS_JSON - value: {{ required "BASIC_AUTH_USERS_JSON needs to be set" .Values.deployment.secrets.basicAuth.usersJson | toJson | quote }} - - name: QUEUE_DIR - value: {{ .Values.deployment.queue.path | quote }} + envFrom: + - secretRef: + name: {{ .Values.app.name }}-env-secrets volumeMounts: - name: ingress-server-tmp mountPath: /tmp diff --git a/app/databuk/ingress_server/charts/ingress-server/templates/secret.yaml b/app/databuk/ingress_server/charts/ingress-server/templates/secret.yaml new file mode 100644 index 00000000..8ad540bc --- /dev/null +++ b/app/databuk/ingress_server/charts/ingress-server/templates/secret.yaml @@ -0,0 +1,14 @@ +apiVersion: v1 +kind: Secret +metadata: + name: {{ .Values.app.name }}-env-secrets + labels: + app.kubernetes.io/name: {{ .Values.app.name }} +type: Opaque +stringData: + S3_ENDPOINT_URL: {{ required "S3_ENDPOINT_URL needs to be set" .Values.deployment.secrets.s3.endpointUrl | quote }} + S3_ACCESS_KEY: {{ required "S3_ACCESS_KEY needs to be set" .Values.deployment.secrets.s3.accessKey | quote }} + S3_SECRET_KEY: {{ required "S3_SECRET_KEY needs to be set" .Values.deployment.secrets.s3.secretKey | quote }} + S3_STORE_URL: {{ required "S3_STORE_URL needs to be set" .Values.deployment.secrets.s3.storeUrl | quote }} + BASIC_AUTH_USERS_JSON: {{ required "BASIC_AUTH_USERS_JSON needs to be set" .Values.deployment.secrets.basicAuth.usersJson | toJson | quote }} + QUEUE_DIR: {{ .Values.deployment.queue.path | quote }} diff --git a/app/databuk/ingress_server/src/inputs/endpoints_config.yaml b/app/databuk/ingress_server/src/inputs/endpoints_config.yaml index e9124013..bb5241d6 100644 --- a/app/databuk/ingress_server/src/inputs/endpoints_config.yaml +++ b/app/databuk/ingress_server/src/inputs/endpoints_config.yaml @@ -2,3 +2,9 @@ endpoints: - name: bukov endpoint: /api/v1/bukov schema_path: schemas/bukov_schema_v1.yaml + +active-scrappers: + - name: bukov + cron: "*/5 * * * *" + url: http://test.cz/api/v1/bukov + schema_path: schemas/bukov_schema_v1.yaml diff --git a/env.example b/env.example new file mode 100644 index 00000000..d6018b4a --- /dev/null +++ b/env.example @@ -0,0 +1,5 @@ +S3_BUCKET_NAME=hlavo-release +S3_ACCESS_KEY=your_access_key_here +S3_SECRET_KEY=your_secret_key_here +S3_ENDPOINT_URL=https://s3.cl4.du.cesnet.cz +S3_ADDRESSING_STYLE=path \ No newline at end of file