[Integration Testing] PEcAn Docker Stack Run : Single Site, Single Model #24
Workflow file for this run
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| name : Sipnet Model Run | |
| on : | |
| pull_request: | |
| # allow manual triggering | |
| workflow_dispatch: | |
| schedule: | |
| # run Thursday 4:30 AM UTC | |
| - cron: '30 4 * * 4' | |
| jobs: | |
| test: | |
| runs-on: ubuntu-latest | |
| env: | |
| GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} | |
| steps: | |
| - name: Free Disk Space (Ubuntu) | |
| uses: jlumbroso/free-disk-space@main | |
| with: | |
| # this might remove tools that are actually needed, | |
| # if set to "true" but frees about 6 GB | |
| tool-cache: false | |
| # all of these default to true, but feel free to set to | |
| # "false" if necessary for your workflow | |
| android: true | |
| dotnet: true | |
| haskell: true | |
| large-packages: true | |
| docker-images: false | |
| swap-storage: true | |
| - name: Checkout source code | |
| uses: actions/checkout@v4 | |
| - name: Set up Docker Compose | |
| run: | | |
| sudo apt-get update | |
| sudo apt-get -y install docker-compose | |
| - name: Add Volumes to Executor | |
| run: | | |
| cp docker-compose.dev.yml docker-compose.override.yml | |
| sed -i'' '/R_library/d' docker-compose.override.yml | |
| - name: Build Containers | |
| run: | | |
| cp docker/env.example .env | |
| echo "COMPOSE_PROJECT_NAME=pecan" >> .env | |
| echo "PECAN_VERSION=develop" >> .env | |
| echo "UID=$(id -u)" >> .env | |
| echo "GID=$(id -g)" >> .env | |
| docker compose up -d postgres | |
| sleep 30 | |
| docker run --rm --network pecan_pecan pecan/db:ci | |
| docker run --rm --network pecan_pecan --volume pecan_pecan:/data --env FQDN=docker pecan/data:develop | |
| docker image rm pecan/db:ci pecan/data:develop | |
| - name: Run required containers | |
| run: | | |
| docker compose up -d sipnet executor | |
| - name: Check if containers are running # This will be updated soon to a loop | |
| run: | | |
| docker ps | |
| sleep 50 | |
| - name: Run SIPNET | |
| run: | | |
| docker compose exec --workdir /pecan/tests executor R CMD ../web/workflow.R --settings test.xml |