Allow passing itksnap path/command as an argument for the monitoring tool #1445
Workflow file for this run
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| name: Integration local docker workflow | |
| on: pull_request | |
| jobs: | |
| setup: | |
| name: local-docker-deploy | |
| runs-on: ubuntu-latest | |
| env: | |
| IMAGE_NAME: medperf-api:test | |
| steps: | |
| - name: Checkout repository | |
| uses: actions/checkout@v2 | |
| - name: Set up Python 3.9 | |
| uses: actions/setup-python@v2 | |
| with: | |
| python-version: '3.9' | |
| - name: Install Singularity | |
| working-directory: .. | |
| run: | | |
| sudo apt-get update | |
| sudo apt-get install -y build-essential libssl-dev uuid-dev libgpgme11-dev \ | |
| squashfs-tools libseccomp-dev wget pkg-config git cryptsetup debootstrap libglib2.0-dev | |
| wget https://go.dev/dl/go1.17.11.linux-amd64.tar.gz | |
| sudo tar --directory=/usr/local -xzvf go1.17.11.linux-amd64.tar.gz | |
| export PATH=/usr/local/go/bin:$PATH | |
| wget https://github.com/sylabs/singularity/releases/download/v3.10.0/singularity-ce-3.10.0.tar.gz | |
| tar -xzvf singularity-ce-3.10.0.tar.gz | |
| cd singularity-ce-3.10.0 | |
| ./mconfig | |
| cd builddir | |
| make | |
| sudo make install | |
| - name: Install dependencies | |
| working-directory: . | |
| run: | | |
| python -m pip install --upgrade pip | |
| pip install -e cli/ | |
| pip install -r cli/test-requirements.txt | |
| pip install -r server/requirements.txt | |
| pip install -r server/test-requirements.txt | |
| - name: Set server environment vars | |
| working-directory: ./server | |
| run: cp .env.local.local-auth .env | |
| - name: Generate SSL certificate | |
| working-directory: ./server | |
| run: sh setup-dev-server.sh -c cert.crt -k cert.key -d 0 | |
| - name: Build container image | |
| working-directory: ./server | |
| run: | | |
| cp ../mock_tokens/tokens.json tokens.json | |
| docker build -t ${{ env.IMAGE_NAME }} -f Dockerfile.gha . | |
| - name: Run server in background | |
| working-directory: ./server | |
| run: PORT=8080 && docker run --name medperf_api -d -p 8000:${PORT} -e PORT=${PORT} -e SSL_FLAGS="--certfile=cert.crt --keyfile=cert.key" ${{ env.IMAGE_NAME }} | |
| - name: Run server integration tests | |
| working-directory: ./server | |
| run: docker exec medperf_api sh -c "pip install -r test-requirements.txt && python seed.py --server https://127.0.0.1:8080 --cert cert.crt --tokens tokens.json" | |
| - name: Run chestxray demo | |
| working-directory: . | |
| run: sh cli/cli_chestxray_tutorial_test.sh -f | |
| - name: Run client integration tests | |
| working-directory: . | |
| run: sh cli/cli_tests.sh -f |