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#2391 adding graceful handling if PloverDB is down #1153

#2391 adding graceful handling if PloverDB is down

#2391 adding graceful handling if PloverDB is down #1153

Workflow file for this run

name: "Test Build"
on:
workflow_dispatch:
push:
branches: [ master, production, itrb-test, dev ]
paths:
- 'code/**'
- 'DockerBuild/**'
- 'requirements.txt'
- '.github/workflows/pytest.yml'
pull_request:
branches: [ master, production, itrb-test, dev ]
paths:
- 'code/**'
- 'DockerBuild/**'
- 'requirements.txt'
- '.github/workflows/pytest.yml'
jobs:
analyze:
name: Analyze
runs-on: [self-hosted, ARAX, docker]
permissions:
actions: read
contents: read
security-events: read
strategy:
fail-fast: false
matrix:
language: [ 'python' ]
steps:
- name: Checkout repository
uses: actions/checkout@v2
- name: Set up config files
run: |
scp [email protected]:config_secrets.json /mnt/config/config_secrets.json
- name: Download databases into CICD instance
continue-on-error: true
run: |
cd /home/ubuntu/RTX
git checkout ${GITHUB_REF#refs/heads/}
git pull
/home/ubuntu/venv3.9/bin/pip3 install -r requirements.txt
/home/ubuntu/venv3.9/bin/python3 code/ARAX/ARAXQuery/ARAX_database_manager.py --mnt --skip-if-exists --remove_unused
git checkout master
- name: Stop any running containers
continue-on-error: true
run: sudo docker stop $(sudo docker ps -aq)
- name: Clean up any left over containers
continue-on-error: true
run: sudo docker rm $(sudo docker ps -aq)
- name: Clean up any left over images
continue-on-error: true
run: sudo docker rmi $(sudo docker images -q)
- name: Build docker image
run: sudo docker build --no-cache=true --rm -t rtx:test DockerBuild/ -f DockerBuild/Merged-Dockerfile
- name: Run docker container
run: sudo docker run -d -it --name rtx_test -v /mnt/data/orangeboard/databases:/mnt/data/orangeboard/databases -v /mnt/config/config_secrets.json:/mnt/data/orangeboard/production/RTX/code/config_secrets.json rtx:test
- name: Create symlinks
run: sudo docker exec rtx_test bash -c "sudo -u rt bash -c 'cd /mnt/data/orangeboard/production/RTX && python3 code/ARAX/ARAXQuery/ARAX_database_manager.py'"
- name: Build KP info cache
run: sudo docker exec rtx_test bash -c "cd /mnt/data/orangeboard/production/RTX/code/ARAX/ARAXQuery/Expand && python3 kp_info_cacher.py"
- name: Start services
run: |
sudo docker exec rtx_test service apache2 start
sudo docker exec rtx_test service RTX_OpenAPI_production start
sudo docker exec rtx_test service RTX_Complete start
- name: Run tests with pytest
run: sudo docker exec rtx_test bash -c "cd /mnt/data/orangeboard/production/RTX/code/ARAX/test && pytest -v --disable-pytest-warnings"
- name: Remove and delete all docker containers & images
continue-on-error: true
run: |
sudo docker stop $(sudo docker ps -aq)
sudo docker rm $(sudo docker ps -aq)
sudo docker rmi $(sudo docker images -q)