fix RUV error on Lxgn data #248
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| name: Playbase unittest | |
| on: | |
| pull_request: | |
| workflow_dispatch: | |
| env: | |
| DOCKER_TAG: bigomics/omicsplayground:latest | |
| jobs: | |
| unittest: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - | |
| name: Checkout | |
| uses: actions/checkout@v3 | |
| - | |
| name: Set up Docker Buildx | |
| uses: docker/setup-buildx-action@v2 | |
| # - | |
| # name: Setup upterm session | |
| # uses: lhotari/action-upterm@v1 | |
| # with: | |
| # ## limits ssh access and adds the ssh public key for the user which triggered the workflow | |
| # limit-access-to-actor: true | |
| # ## limits ssh access and adds the ssh public keys of the listed GitHub users | |
| # limit-access-to-users: mauromiguelm | |
| # wait-timeout-minutes: 120 | |
| - | |
| name: Build OPG docker | |
| id: build-opg-docker | |
| run: | | |
| docker build --build-arg DOCKER_TAG=$DOCKER_TAG -t $DOCKER_TAG -f ./.github/workflows/unittest/Dockerfile . | |
| # - | |
| # name: Setup upterm session | |
| # uses: lhotari/action-upterm@v1 | |
| # with: | |
| # ## limits ssh access and adds the ssh public key for the user which triggered the workflow | |
| # limit-access-to-actor: true | |
| # ## limits ssh access and adds the ssh public keys of the listed GitHub users | |
| # limit-access-to-users: mauromiguelm | |
| # wait-timeout-minutes: 120 | |
| - | |
| name: Unittest docker | |
| id: test-snapshot | |
| run: | | |
| docker run --name run_tests $DOCKER_TAG | |
| docker cp run_tests:/test_result.txt . | |
| - | |
| name: Check workflow result | |
| id: check-workflow-result | |
| run: | | |
| if [[ "${{ steps.test-snapshot.outputs.workflow_result }}" == "false" ]]; then | |
| echo "Workflow failed." | |
| exit 1 | |
| fi | |
| - | |
| name: Upload error log | |
| if: always() | |
| uses: actions/upload-artifact@v3 | |
| with: | |
| name: test-error-log | |
| path: ./test_result.txt | |
| if-no-files-found: ignore |