Merge pull request #1394 from Annabella-Hines/FluSight-Ensemble-2024-… #298
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| name: Upload hub data to a hubverse-hosted AWS S3 bucket | |
| on: | |
| push: | |
| branches: | |
| - main | |
| env: | |
| # Hubverse AWS account number | |
| AWS_ACCOUNT: 767397675902 | |
| permissions: | |
| contents: read | |
| # id-token write required for AWS auth | |
| id-token: write | |
| jobs: | |
| upload: | |
| # Don't run on forked repositories | |
| if: github.event.repository.fork != true | |
| runs-on: ubuntu-22.04 | |
| steps: | |
| - name: Checkout | |
| uses: actions/checkout@v4 | |
| - name: Get hub cloud config | |
| # save cloud-related fields from admin config as environment variables | |
| # (jq json parser is installed on Github-hosted runners) | |
| run: | | |
| cloud_enabled=$(cat ./hub-config/admin.json | jq -r '.cloud.enabled') \ | |
| && echo "CLOUD_ENABLED=$cloud_enabled" | |
| cloud_storage_location=$(cat ./hub-config/admin.json | jq -r '.cloud.host.storage_location') \ | |
| && echo "CLOUD_STORAGE_LOCATION=$cloud_storage_location" | |
| echo "CLOUD_ENABLED=$cloud_enabled" >> $GITHUB_ENV | |
| echo "CLOUD_STORAGE_LOCATION=$cloud_storage_location" >> $GITHUB_ENV | |
| - name: Configure AWS credentials | |
| # request credentials to assume the hub's AWS role via OpenID Connect | |
| if: env.CLOUD_ENABLED == 'true' | |
| uses: aws-actions/configure-aws-credentials@v4 | |
| with: | |
| role-to-assume: arn:aws:iam::${{ env.AWS_ACCOUNT }}:role/${{ env.CLOUD_STORAGE_LOCATION }} | |
| aws-region: us-east-1 | |
| - name: Install rclone | |
| if: env.CLOUD_ENABLED == 'true' | |
| run: | | |
| curl https://rclone.org/install.sh | sudo bash | |
| rclone version | |
| - name: Sync files to cloud storage | |
| # sync specified hub directories to S3 | |
| # (to exclude a directory, remove it from the hub_directories list below) | |
| if: env.CLOUD_ENABLED == 'true' | |
| run: | | |
| hub_directories=( | |
| 'auxiliary-data' | |
| 'hub-config' | |
| 'model-abstracts' | |
| 'model-metadata' | |
| 'target-data' | |
| ) | |
| for DIRECTORY in "${hub_directories[@]}" | |
| do | |
| if [ -d "./$DIRECTORY" ] | |
| then | |
| rclone sync \ | |
| "./$DIRECTORY/" \ | |
| ":s3,provider=AWS,env_auth:$BUCKET_NAME/$DIRECTORY" \ | |
| --checksum --verbose --stats-one-line --config=/dev/null | |
| fi | |
| done | |
| # unlike other data, model-outputs are synced to a "raw" location | |
| # so we can transform it before presenting to users | |
| rclone sync ./model-output/ ":s3,provider=AWS,env_auth:$BUCKET_NAME/raw/model-output" \ | |
| --checksum --verbose --stats-one-line --config=/dev/null | |
| shell: bash | |
| env: | |
| BUCKET_NAME: ${{ env.CLOUD_STORAGE_LOCATION }} |