Submit future biaspdarks even if current one exists #7129
Workflow file for this run
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| # Workflow is based on the Astropy GitHub actions workflow, ci_workflows.yml | |
| name: CI | |
| on: | |
| push: | |
| branches: | |
| - '*' | |
| tags: | |
| - '*' | |
| pull_request: | |
| jobs: | |
| tests: | |
| name: Unit tests | |
| runs-on: ${{ matrix.os }} | |
| strategy: | |
| fail-fast: true | |
| matrix: | |
| include: | |
| - os: ubuntu-latest | |
| python-version: '3.13' | |
| numpy-version: '<2.3' # Numba does not yet support NumPy 2.3! | |
| scipy-version: '' | |
| astropy-version: '<8.0' | |
| matplotlib-version: '' | |
| fitsio-version: '' | |
| numba-version: '' | |
| - os: ubuntu-latest | |
| python-version: '3.12' | |
| numpy-version: '<2.2' | |
| scipy-version: '<1.16' | |
| astropy-version: '<7.0' | |
| matplotlib-version: '<3.12' | |
| fitsio-version: '' | |
| numba-version: '' | |
| - os: ubuntu-latest | |
| python-version: '3.11' | |
| numpy-version: '<2.1' | |
| scipy-version: '<1.14' | |
| astropy-version: '<6.1' | |
| matplotlib-version: '<3.11' | |
| fitsio-version: '' | |
| numba-version: '<0.70' | |
| - os: ubuntu-latest | |
| python-version: '3.10' | |
| numpy-version: '<2.0' | |
| scipy-version: '<1.14' | |
| astropy-version: '<6.1' | |
| matplotlib-version: '<3.10' | |
| fitsio-version: '' | |
| numba-version: '<0.70' | |
| # os: [ubuntu-latest] | |
| # python-version: ['3.9', '3.10'] # fuji+guadalupe, not ready for 3.11 yet? | |
| # astropy-version: ['==5.0', '<6'] # fuji+guadalupe, latest | |
| # fitsio-version: ['==1.1.6', '<2'] # fuji+guadalupe, latest | |
| # numpy-version: ['<1.23'] # to keep asscalar, used by astropy | |
| # numba-version: ['<0.61.0'] # for compatibility with old numpy | |
| steps: | |
| - name: Install System Packages | |
| run: sudo apt install libbz2-dev subversion | |
| - name: Checkout code | |
| uses: actions/checkout@v4 | |
| - name: Set up Python ${{ matrix.python-version }} | |
| uses: actions/setup-python@v5 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| - name: Install Python dependencies | |
| run: | | |
| python -m pip install --upgrade pip setuptools wheel | |
| python -m pip install pytz healpy llvmlite speclite | |
| python -m pip install 'numpy${{ matrix.numpy-version }}' 'scipy${{ matrix.scipy-version }}' 'astropy${{ matrix.astropy-version }}' 'matplotlib${{ matrix.matplotlib-version }}' specutils | |
| python -m pip cache remove fitsio | |
| python -m pip cache remove numba | |
| python -m pip install --no-deps --force-reinstall --ignore-installed 'fitsio${{ matrix.fitsio-version }}' 'numba${{ matrix.numba-version }}' | |
| python -m pip install pytest | |
| - name: Install DESI dependencies | |
| env: | |
| DESIUTIL_VERSION: 3.6.0 # required for astropy 7.x | |
| SPECTER_VERSION: 0.11.0 | |
| GPU_SPECTER_VERSION: main | |
| DESIMODEL_VERSION: 0.19.3 | |
| DESITARGET_VERSION: main | |
| REDROCK_VERSION: 0.20.4 | |
| run: | | |
| # --no-build-isolation needed for older code tags with latest pip/setuputils | |
| python -m pip install --no-build-isolation desiutil==${DESIUTIL_VERSION} | |
| python -m pip install --no-build-isolation git+https://github.com/desihub/specter.git@${SPECTER_VERSION} | |
| python -m pip install --no-build-isolation git+https://github.com/desihub/gpu_specter.git@${GPU_SPECTER_VERSION} | |
| python -m pip install --no-build-isolation git+https://github.com/desihub/desimodel.git@${DESIMODEL_VERSION} | |
| python -m pip install --no-build-isolation git+https://github.com/desihub/desitarget.git@${DESITARGET_VERSION} | |
| python -m pip install --no-build-isolation git+https://github.com/desihub/redrock.git@${REDROCK_VERSION} | |
| - name: Install desimodel data | |
| env: | |
| DESIMODEL_DATA: branches/test-0.19 | |
| run: install_desimodel_data --desimodel-version ${DESIMODEL_DATA} | |
| - name: Run the test | |
| run: pytest | |
| coverage: | |
| name: Test coverage | |
| runs-on: ${{ matrix.os }} | |
| strategy: | |
| fail-fast: true | |
| matrix: | |
| # matches python 3.10 environment above, approximately matching NERSC | |
| os: [ubuntu-latest] | |
| python-version: ['3.10'] | |
| numpy-version: ['<2.0'] | |
| scipy-version: ['<1.14'] | |
| astropy-version: ['<6.1'] | |
| matplotlib-version: ['<3.10'] | |
| fitsio-version: [''] | |
| numba-version: ['<0.70'] | |
| steps: | |
| - name: Install System Packages | |
| run: sudo apt install libbz2-dev subversion | |
| - name: Checkout code | |
| uses: actions/checkout@v4 | |
| - name: Set up Python ${{ matrix.python-version }} | |
| uses: actions/setup-python@v5 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| - name: Install Python dependencies | |
| run: | | |
| python -m pip install --upgrade pip setuptools wheel | |
| python -m pip install pytz healpy llvmlite speclite | |
| python -m pip install 'numpy${{ matrix.numpy-version }}' 'scipy${{ matrix.scipy-version }}' 'astropy${{ matrix.astropy-version }}' 'matplotlib${{ matrix.matplotlib-version }}' | |
| python -m pip cache remove fitsio | |
| python -m pip cache remove numba | |
| python -m pip install --no-deps --force-reinstall --ignore-installed 'fitsio${{ matrix.fitsio-version }}' 'numba${{ matrix.numba-version }}' | |
| python -m pip install pytest pytest-cov coveralls | |
| - name: Install DESI dependencies | |
| env: | |
| DESIUTIL_VERSION: 3.6.0 # required for astropy 7.x | |
| SPECTER_VERSION: 0.11.0 | |
| GPU_SPECTER_VERSION: main | |
| DESIMODEL_VERSION: 0.19.3 | |
| DESITARGET_VERSION: main | |
| REDROCK_VERSION: 0.20.4 | |
| run: | | |
| # --no-build-isolation needed for older code tags with latest pip/setuputils | |
| python -m pip install --no-build-isolation desiutil==${DESIUTIL_VERSION} | |
| python -m pip install --no-build-isolation git+https://github.com/desihub/desimodel.git@${DESIMODEL_VERSION} | |
| python -m pip install --no-build-isolation git+https://github.com/desihub/specter.git@${SPECTER_VERSION} | |
| python -m pip install --no-build-isolation git+https://github.com/desihub/gpu_specter.git@${GPU_SPECTER_VERSION} | |
| python -m pip install --no-build-isolation git+https://github.com/desihub/desitarget.git@${DESITARGET_VERSION} | |
| python -m pip install --no-build-isolation git+https://github.com/desihub/redrock.git@${REDROCK_VERSION} | |
| - name: Install desimodel data | |
| env: | |
| DESIMODEL_DATA: branches/test-0.19 | |
| run: install_desimodel_data --desimodel-version ${DESIMODEL_DATA} | |
| - name: Run the test | |
| run: pytest --cov | |
| # 2026-02-27 : Coveralls is having a major outage; skip the coverage upload | |
| ### - name: Coveralls | |
| ### env: | |
| ### COVERALLS_REPO_TOKEN: ${{ secrets.COVERALLS_REPO_TOKEN }} | |
| ### GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} | |
| ### run: coveralls | |
| desilite: | |
| name: Test minimal env | |
| runs-on: ${{ matrix.os }} | |
| strategy: | |
| fail-fast: true | |
| matrix: | |
| os: [ubuntu-latest] | |
| python-version: ['3.10'] | |
| steps: | |
| - name: Checkout code | |
| uses: actions/checkout@v4 | |
| - name: Set up Python ${{ matrix.python-version }} | |
| uses: actions/setup-python@v5 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| - name: Install Python dependencies | |
| run: | | |
| python -m pip install --upgrade pip setuptools wheel pytest | |
| ### python -m pip install astropy scipy numba "numpy<2.0" | |
| ### python -m pip install pytest | |
| ### python -m pip cache remove fitsio | |
| ### python -m pip install --no-deps --force-reinstall --ignore-installed fitsio | |
| ### python -m pip install desiutil | |
| ### python -m pip install git+https://github.com/desihub/desitarget.git | |
| python -m pip install . | |
| - name: Run just the lite env test | |
| run: pytest py/desispec/test/test_lite.py | |
| docs: | |
| name: Doc test | |
| runs-on: ${{ matrix.os }} | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| os: [ubuntu-latest] | |
| python-version: ['3.10'] | |
| steps: | |
| - name: Checkout code | |
| uses: actions/checkout@v4 | |
| with: | |
| fetch-depth: 0 | |
| - name: Set up Python ${{ matrix.python-version }} | |
| uses: actions/setup-python@v5 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| - name: Install Python dependencies | |
| run: python -m pip install --upgrade pip setuptools wheel Sphinx sphinx-rtd-theme | |
| # run: python -m pip install --upgrade pip wheel docutils\<0.18 Sphinx==3.1.2 | |
| - name: Test the documentation | |
| run: sphinx-build -W --keep-going -b html doc doc/_build/html | |
| api: | |
| name: API doc completeness test | |
| runs-on: ${{ matrix.os }} | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| os: [ubuntu-latest] | |
| python-version: ['3.10'] | |
| steps: | |
| - name: Checkout code | |
| uses: actions/checkout@v4 | |
| - name: Set up Python ${{ matrix.python-version }} | |
| uses: actions/setup-python@v5 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| - name: Install Python dependencies | |
| run: | | |
| python -m pip install --upgrade pip setuptools wheel | |
| python -m pip install desiutil | |
| - name: Generate api.rst | |
| run: desi_api_file --api ./api.rst desispec | |
| - name: Compare generated api.rst to checked-in version | |
| run: diff --ignore-space-change --ignore-blank-lines ./api.rst ./doc/api.rst | |
| style: | |
| name: Style check | |
| runs-on: ${{ matrix.os }} | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| os: [ubuntu-latest] | |
| python-version: ['3.10'] | |
| steps: | |
| - name: Checkout code | |
| uses: actions/checkout@v4 | |
| - name: Set up Python ${{ matrix.python-version }} | |
| uses: actions/setup-python@v5 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| - name: Install Python dependencies | |
| run: python -m pip install --upgrade pip setuptools wheel pycodestyle | |
| - name: Test the style; failures are allowed | |
| # This is equivalent to an allowed falure. | |
| continue-on-error: true | |
| run: pycodestyle --count py/desispec |