build_test_deploy.yml

name: Build, Test and Deploy

on:
  pull_request:
    branches: [ main ]
  schedule:
    - cron:  '0 0 * * *'

jobs:
  linux-build-and-test:
    runs-on: ubuntu-20.04
    steps:

    - name: Checkout Repo
      uses: actions/checkout@v2
      with:
        lfs: true

    - name: Set Up Conda Environment
      uses: conda-incubator/setup-miniconda@v2
      with:
        miniconda-version: "latest"
        activate-environment: inference
        environment-file: ./environment.yml

    - name: flake8
      shell: bash -l {0}
      run: |
        conda activate inference
        flake8 . --count --exit-zero --statistics

    - name: mypy
      shell: bash -l {0}
      run: |
        conda activate inference
        find . -type f -name "*.py" | xargs mypy

    - name: Test with pytest
      shell: bash -l {0}
      env:
        CUSTOMCONNSTR_AZUREML_SERVICE_PRINCIPAL_SECRET: ${{ secrets.CUSTOMCONNSTR_AZUREML_SERVICE_PRINCIPAL_SECRET }}
        CUSTOMCONNSTR_API_AUTH_SECRET: ${{ secrets.CUSTOMCONNSTR_API_AUTH_SECRET }}
        CLUSTER: "training-nc12"
        WORKSPACE_NAME: "InnerEye-DeepLearning"
        EXPERIMENT_NAME: "api_inference"
        RESOURCE_GROUP: "InnerEye-DeepLearning"
        SUBSCRIPTION_ID: ${{ secrets.SUBSCRIPTION_ID }}
        APPLICATION_ID: ${{ secrets.APPLICATION_ID }}
        TENANT_ID: ${{ secrets.TENANT_ID }}
        DATASTORE_NAME: "inferencetestimagestore"
        IMAGE_DATA_FOLDER: "temp-image-store"
      run: |
        conda activate inference
        pytest --cov=./ --cov-report=html

  test-azure-deployment:
    runs-on: ubuntu-20.04
    steps:
    - name: Checkout Repo
      uses: actions/checkout@v2
      with:
        lfs: true

    - name: Azure Login
      uses: Azure/login@v1
      with:
        creds: '{"clientId":"${{ secrets.AZURE_CLIENT_ID }}","clientSecret":"${{ secrets.AZURE_CLIENT_SECRET }}","subscriptionId":"${{ secrets.SUBSCRIPTION_ID }}","tenantId":"${{ secrets.TENANT_ID }}"}'

    - name: Deploy Azure App Service
      uses: azure/CLI@v1
      with:
        azcliversion: 2.42.0
        inlineScript: |
          az webapp up --name innereyeinferencetest-${{ github.run_id }} --subscription "InnerEye Dev" -g InnerEye-Inference --sku S1 --location ukwest --runtime PYTHON:3.7
          az webapp delete --name innereyeinferencetest-${{ github.run_id }} --subscription "InnerEye Dev" -g InnerEye-Inference