Merge pull request #160 from LSSTDESC/debug #516
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| name: build_and_test | |
| on: | |
| push: | |
| branches: | |
| - main | |
| - lsst-dev | |
| - master | |
| pull_request: | |
| jobs: | |
| build_and_test: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v3 | |
| - uses: conda-incubator/setup-miniconda@v2 | |
| with: | |
| python-version: "3.11" | |
| miniforge-variant: Mambaforge | |
| miniforge-version: latest | |
| show-channel-urls: true | |
| activate-environment: test | |
| - name: Install dependencies | |
| # Might be quicker to install rubin-env plus any necessary additions. | |
| shell: bash -l {0} | |
| run: | | |
| mamba install -y "numpy>1.15" scipy "matplotlib>3.1" pandas llvmlite numba "astropy>=3.2" "photutils>=1.7" astroquery coloredlogs scikit-image>=0.20 h5py emcee tqdm mpi4py schwimmbad "iminuit>=2" "coverage>=3.6" configparser coveralls deprecated pyyaml "pytest==8.0.0" pytest-cov rubin-libradtran "getCalspec>=2.0.0" | |
| # python -c "from getCalspec.rebuild import rebuild_tables; rebuild_tables()" | |
| pip install lsst.utils | |
| pip install git+https://github.com/LSSTDESC/getObsAtmo.git@main | |
| mamba install astrometry | |
| - name: Download test data | |
| shell: bash -l {0} | |
| run: | | |
| wget -r -q -nc http://data.astrometry.net/5000/index-5002-24.fits | |
| wget -r -q -nc http://data.astrometry.net/5000/index-5000-40.fits | |
| mv data.astrometry.net/5000/index-*.fits $CONDA_PREFIX/data/ | |
| export ASTROMETRYNET_DIR=$CONDA_PREFIX | |
| - name: List installed packages | |
| shell: bash -l {0} | |
| run: | | |
| conda list | |
| pip list -v | |
| - name: Build and install | |
| shell: bash -l {0} | |
| run: | | |
| pip install -v --no-deps -e . | |
| - name: Run full chain test | |
| shell: bash -l {0} | |
| run: | | |
| pytest tests/test_fullchain.py --log-cli-level=INFO --cov --cov-report lcov | |
| - name: Run pytests | |
| shell: bash -l {0} | |
| run: | | |
| pytest tests/test_extractor.py --log-cli-level=INFO --cov --cov-append --cov-report lcov | |
| pytest tests/test_simulator.py --log-cli-level=INFO --cov --cov-append --cov-report lcov | |
| pytest tests/test_utils.py --log-cli-level=INFO --cov --cov-append --cov-report lcov | |
| pytest tests/test_fitter.py --log-cli-level=INFO --cov --cov-append --cov-report lcov | |
| pytest tests/test_multispectra.py --log-cli-level=INFO --cov --cov-append --cov-report lcov | |
| - name: Run doctests and coverage | |
| shell: bash -l {0} | |
| run: pytest spectractor tests/test_fullchain.py -v --cov --cov-append --cov-report lcov --doctest-modules spectractor --doctest-continue-on-failure | |
| continue-on-error: true | |
| - name: Coveralls | |
| uses: coverallsapp/github-action@master | |
| with: | |
| github-token: ${{ secrets.GITHUB_TOKEN }} | |
| path-to-lcov: coverage.lcov |