Experiment with running tests on changed files only #15
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| name: Test Modified Files | |
| on: | |
| pull_request: | |
| branches: [ develop ] | |
| permissions: | |
| id-token: write # Required for OIDC authentication to AWS | |
| contents: read | |
| jobs: | |
| test_files: | |
| runs-on: ubuntu-latest | |
| # Automatically activate our mamba environment when it's ready | |
| defaults: | |
| run: | |
| shell: bash -l {0} | |
| steps: | |
| - uses: actions/checkout@v4 | |
| with: | |
| path: dea-notebooks | |
| - name: Configure AWS credentials | |
| uses: aws-actions/configure-aws-credentials@v4 | |
| with: | |
| role-to-assume: arn:aws:iam::538673716275:role/github-actions-role-readonly | |
| aws-region: ap-southeast-2 | |
| role-duration-seconds: 7200 # 2 hours | |
| - name: Copy tide modelling files with the AWS CLI | |
| run: | | |
| aws s3 sync s3://dea-non-public-data/tide_models/tide_models/fes2014 tide_models/fes2014 | |
| aws s3 sync s3://dea-non-public-data/tide_models/tide_models/hamtide tide_models/hamtide | |
| - name: Login to Amazon ECR Private | |
| id: login-ecr | |
| uses: aws-actions/amazon-ecr-login@v2 | |
| - name: Pull dea-sandbox image from ECR | |
| run: | | |
| docker pull 538673716275.dkr.ecr.ap-southeast-2.amazonaws.com/geoscienceaustralia/sandbox:stable | |
| - name: Configure AWS credentials | |
| uses: aws-actions/configure-aws-credentials@v4 | |
| with: | |
| role-to-assume: arn:aws:iam::060378307146:role/github-actions-dea-notebooks--sandbox | |
| aws-region: ap-southeast-2 | |
| role-duration-seconds: 7200 # 2 hours | |
| - name: Get Database Credentials | |
| run: | | |
| username_password=$(aws ssm get-parameter --name /dea-sandbox-eks/sandbox_reader/db.creds --with-decryption --query Parameter.Value --output text) | |
| echo DATACUBE_DB_URL=postgresql://${username_password}@localhost:5432/odc >> $GITHUB_ENV | |
| - name: Open Port Forward to RDS | |
| run: | | |
| npx basti connect \ | |
| --custom-target-vpc vpc-086904199e505c1f6 \ | |
| --custom-target-host db-aurora-dea-sandbox-eks-1.cos5zfpkso9m.ap-southeast-2.rds.amazonaws.com \ | |
| --custom-target-port 5432 \ | |
| --local-port 5432 & | |
| npx wait-on --timeout 120000 --interval 1000 tcp:127.0.0.1:5432 | |
| echo "PGPORT=5432" >> $GITHUB_ENV | |
| echo "PGHOST=localhost" >> $GITHUB_ENV | |
| - name: Get changed notebook files | |
| id: changed-notebooks | |
| uses: tj-actions/changed-files@v44 | |
| with: | |
| files: '**/*.ipynb' | |
| separator: ' ' | |
| - name: Print changed notebook files | |
| if: steps.changed-notebooks.outputs.any_changed == 'true' | |
| run: | | |
| echo "Changed notebook files:" | |
| echo "${{ steps.changed-notebooks.outputs.all_changed_files }}" | |
| - name: Run the Notebook tests | |
| if: steps.changed-notebooks.outputs.any_changed == 'true' | |
| run: | | |
| sudo chown -R 1000:100 ./dea-notebooks | |
| cd ./dea-notebooks | |
| docker run --rm \ | |
| --net=host \ | |
| --env DATACUBE_DB_URL \ | |
| --env AWS_SESSION_TOKEN \ | |
| --env AWS_REGION \ | |
| --env AWS_ACCESS_KEY_ID \ | |
| --env AWS_SECRET_ACCESS_KEY \ | |
| --env AWS_SESSION_TOKEN \ | |
| --volume ${GITHUB_WORKSPACE}/dea-notebooks:/home/jovyan/dea-notebooks \ | |
| --volume ${GITHUB_WORKSPACE}/tide_models:/var/share/tide_models \ | |
| --env GDAL_HTTP_MAX_RETRY=3 \ | |
| --entrypoint /bin/bash \ | |
| 538673716275.dkr.ecr.ap-southeast-2.amazonaws.com/geoscienceaustralia/sandbox:stable \ | |
| -c " | |
| set -ex | |
| set -o pipefail | |
| cd /home/jovyan/dea-notebooks | |
| pip3 install ./Tools | |
| # pytest Tests/dea_tools | |
| pytest --durations=10 --nbval-lax ${{ steps.changed-notebooks.outputs.all_changed_files }} | |
| " |