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[Integration Testing] PEcAn Docker Stack Run : Single Site, Single Model #9

[Integration Testing] PEcAn Docker Stack Run : Single Site, Single Model

[Integration Testing] PEcAn Docker Stack Run : Single Site, Single Model #9

name : Docker Stack Model Test
on :
pull_request:
# allow manual triggering
workflow_dispatch:
schedule:
# run Thursday 4:30 AM UTC
- cron: '30 4 * * 4'
jobs:
sipnet:
runs-on: ubuntu-latest
env:
GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }}
steps:
- name: Free Disk Space (Ubuntu)
uses: jlumbroso/free-disk-space@main
with:
tool-cache: false
android: true
dotnet: true
haskell: true
large-packages: true
docker-images: false
swap-storage: true
- name: Checkout source code
uses: actions/checkout@v4
- name: Set up Docker Compose
run: |
sudo apt-get update
sudo apt-get -y install docker-compose
- name: Add Volumes to Executor
run: |
cp docker-compose.dev.yml docker-compose.override.yml
sed -i'' '/R_library/d' docker-compose.override.yml
- name: Build Containers #sleep should be removed once we merge #3354
run: |
cp docker/env.example .env
echo "COMPOSE_PROJECT_NAME=pecan" >> .env
echo "PECAN_VERSION=develop" >> .env
echo "UID=$(id -u)" >> .env
echo "GID=$(id -g)" >> .env
docker compose up --wait -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 --wait -d sipnet executor
- name: Check if containers are running #should be removed once we merge #3354
run: |
docker ps
sleep 50
- name: Run SIPNET
run: |
docker compose exec --workdir /pecan/tests executor R CMD ../web/workflow.R --settings docker-ghaction.sipnet.xml