Include NNDC decay data in the final Carsus HDF output #403
Workflow file for this run
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| # For more information about TARDIS pipelines, please refer to: | |
| # | |
| # https://tardis-sn.github.io/tardis/development/continuous_integration.html | |
| name: tests | |
| on: | |
| push: | |
| branches: | |
| - '*' | |
| pull_request: | |
| branches: | |
| - '*' | |
| schedule: | |
| - cron: '0 0 * * 0' # run at midnight every Sunday | |
| concurrency: | |
| group: tests-${{ github.ref }} | |
| cancel-in-progress: true | |
| env: | |
| XUVTOP: /tmp/chianti | |
| CHIANTI_DL_URL: https://download.chiantidatabase.org | |
| CHIANTI_DB_VER: CHIANTI_v9.0.1_database.tar.gz | |
| PYTEST_FLAGS: --remote-data --runslow --test-db=carsus-db/test_databases/test.db | |
| --refdata=carsus-refdata --cov=carsus --cov-report=xml | |
| --cov-report=html --arraydiff --arraydiff-reference-path=carsus-refdata/arraydiff | |
| NBCONVERT_CMD: jupyter nbconvert --execute --ExecutePreprocessor.timeout=600 --to html | |
| CODECOV_TOKEN: ${{ secrets.CODECOV_TOKEN }} | |
| CMFGEN_DL_URL: http://kookaburra.phyast.pitt.edu/hillier/cmfgen_files | |
| CMFGEN_DB_VER: atomic_data_15nov16.tar.gz | |
| jobs: | |
| build: | |
| strategy: | |
| matrix: | |
| os: [ubuntu-latest, macos-latest] | |
| defaults: | |
| run: | |
| shell: bash -l {0} | |
| runs-on: ${{ matrix.os }} | |
| steps: | |
| - uses: actions/checkout@v2 | |
| with: | |
| fetch-depth: 0 | |
| - name: Clone tardis-sn/carsus-db | |
| uses: actions/checkout@v2 | |
| with: | |
| repository: tardis-sn/carsus-db | |
| path: carsus-db | |
| lfs: false # do not pull LFS objects | |
| - name: Pull test database | |
| run: | | |
| cd carsus-db | |
| git lfs install --skip-smudge | |
| git lfs pull --include="test_databases/test.db" | |
| - name: Clone tardis-sn/carsus-refdata | |
| uses: actions/checkout@v2 | |
| with: | |
| repository: tardis-sn/carsus-refdata | |
| path: carsus-refdata | |
| lfs: true | |
| - uses: actions/cache@v2 | |
| with: | |
| path: ${{ env.XUVTOP }} | |
| key: ${{ runner.os }}-${{ env.CHIANTI_DB_VER }} | |
| id: chianti-cache | |
| - name: Download Chianti database | |
| run: | | |
| mkdir -p ${{ env.XUVTOP }} | |
| wget -q ${{ env.CHIANTI_DL_URL }}/${{ env.CHIANTI_DB_VER }} -O ${{ env.XUVTOP }}/chianti.tar.gz | |
| tar -zxf ${{ env.XUVTOP }}/chianti.tar.gz -C ${{ env.XUVTOP }} | |
| if: steps.chianti-cache.outputs.cache-hit != 'true' | |
| - uses: actions/cache@v2 | |
| with: | |
| path: /tmp/atomic | |
| key: ${{ env.CMFGEN_DB_VER }} | |
| id: cmfgen-cache | |
| - name: Download CMFGEN database | |
| run: | | |
| wget -q -U "Mozilla/4.0" ${{ env.CMFGEN_DL_URL }}/${{ env.CMFGEN_DB_VER }} -O /tmp/atomic.tar.gz | |
| tar -zxf /tmp/atomic.tar.gz -C /tmp | |
| if: steps.cmfgen-cache.outputs.cache-hit != 'true' | |
| - name: Setup environment | |
| uses: conda-incubator/setup-miniconda@v2 | |
| with: | |
| miniforge-variant: Mambaforge | |
| miniforge-version: latest | |
| environment-file: carsus_env3.yml | |
| activate-environment: carsus | |
| use-mamba: true | |
| - name: Install package | |
| run: pip install -e . | |
| - name: Run tests | |
| run: pytest carsus ${{ env.PYTEST_FLAGS }} | |
| - name: Run notebooks | |
| run: | | |
| ${{ env.NBCONVERT_CMD }} carsus/io/tests/test_legacy_consistency.ipynb | |
| ${{ env.NBCONVERT_CMD }} carsus/io/tests/test_output_base.ipynb | |
| env: | |
| CARSUS_REFDATA: ${{ github.workspace }}/carsus-refdata | |
| - name: Upload to Codecov | |
| run: bash <(curl -s https://codecov.io/bash) |