Add regression tests #33
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| name: Regression tests | |
| on: | |
| pull_request: | |
| branches: ['develop'] | |
| jobs: | |
| regression_tests: | |
| name: "Test: ${{ matrix.taskdir }}" | |
| timeout-minutes: 1440 | |
| runs-on: self-hosted | |
| defaults: | |
| run: | |
| shell: bash -el {0} | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| taskdir: | |
| - test | |
| - test/isbi24 | |
| # - U2OS/default | |
| # - U2OS/default/adapted | |
| # - U2OS/default/adapted/isbi24 | |
| # - NIH3T3/default | |
| # - NIH3T3/default/adapted | |
| # - NIH3T3/default/adapted/isbi24 | |
| # - GOWT1-1/default | |
| # - GOWT1-1/default/adapted | |
| # - GOWT1-1/default/adapted/isbi24 | |
| # - GOWT1-2/default | |
| # - GOWT1-2/default/adapted | |
| # - GOWT1-2/default/adapted/isbi24 | |
| # - BBBC039 | |
| # - BBBC039/isbi24 | |
| steps: | |
| - name: Checkout | |
| uses: actions/checkout@v2 | |
| - name: Setup Miniconda | |
| uses: conda-incubator/setup-miniconda@v2 | |
| with: | |
| miniconda-version: 'latest' | |
| channels: conda-forge, bioconda, defaults | |
| auto-update-conda: true | |
| auto-activate-base: false | |
| activate-environment: superdsm | |
| environment-file: superdsm.yml | |
| - name: Download image data | |
| run: | | |
| cd examples | |
| python load_data.py | |
| - name: Run SuperDSM | |
| run: python -m "superdsm.batch" examples --task "${{ matrix.taskdir }}" --run | |
| env: | |
| SUPERDSM_INTERMEDIATE_OUTPUT: false | |
| # MKL_DEBUG_CPU_TYPE: 5 | |
| - name: Validate results | |
| run: | | |
| mkdir -p "actual_csv/${{ matrix.taskdir }}" | |
| python tests/regression/test.py \ | |
| "examples/${{ matrix.taskdir }}/seg" \ | |
| "actual_csv/${{ matrix.taskdir }}" \ | |
| "tests/regression/expected/${{ matrix.taskdir }}" |