Add custom short form extraction #181
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| name: Build & Test | |
| on: | |
| push: | |
| pull_request: | |
| jobs: | |
| test-api: | |
| name: Build & Test API | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Free up disk space on GH actions runner | |
| run: | | |
| sudo rm -rf /usr/share/dotnet | |
| sudo rm -rf /usr/local/lib/android | |
| sudo rm -rf /opt/ghc | |
| sudo rm -rf /opt/hostedtoolcache/CodeQL | |
| sudo rm -rf /usr/local/share/boost | |
| sudo rm -rf /usr/share/swift | |
| sudo rm -rf "$AGENT_TOOLSDIRECTORY" | |
| sudo docker system prune -af | |
| sudo apt-get clean | |
| df -h | |
| - uses: actions/checkout@v4 | |
| - name: Set UID and GID | |
| run: | | |
| echo "HOST_UID=$(id -u)" >> $GITHUB_ENV | |
| echo "HOST_GID=$(id -g)" >> $GITHUB_ENV | |
| - name: Build dataload image | |
| run: docker build -t ols4-dataload:local -f ./dataload/Dockerfile . | |
| - name: Run mock dataload and dataload tests | |
| run: | | |
| docker run ols4-dataload:local bash -c "cd /opt/ols && ./test_dataload.sh" | |
| - name: Build other images with docker compose | |
| run: docker compose build --parallel | |
| env: | |
| OLS4_BACKEND_IMAGE: ols4-backend:local | |
| OLS4_FRONTEND_IMAGE: ols4-frontend:local | |
| OLS4_APITESTER_IMAGE: ols4-apitester4:local | |
| DOCKER_BUILDKIT: 1 | |
| COMPOSE_DOCKER_CLI_BUILD: 1 | |
| - name: Set image environment variables | |
| run: | | |
| echo "OLS4_DATALOAD_IMAGE=ols4-dataload:local" >> $GITHUB_ENV | |
| echo "OLS4_BACKEND_IMAGE=ols4-backend:local" >> $GITHUB_ENV | |
| echo "OLS4_FRONTEND_IMAGE=ols4-frontend:local" >> $GITHUB_ENV | |
| echo "OLS4_APITESTER_IMAGE=ols4-apitester4:local" >> $GITHUB_ENV | |
| - name: Update nextflow config to use local dataload image | |
| run: | | |
| sed -i "s|process.container = '.*'|process.container = 'ols4-dataload:local'|" dataload/nextflow/local_nextflow.config | |
| - name: Run full Nextflow dataload and API tests | |
| run: | | |
| ./test_api.sh |