add badelf and warren_lab apps 🎅 #2908
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| # This workflow will check for Black formating, install Python dependencies using Anaconda, and then run tests with a single version of Python. | |
| # For more information see: https://help.github.com/actions/language-and-framework-guides/using-python-with-github-actions | |
| # | |
| # We also use a third-party action(s) for setting up our conda environment. See: | |
| # conda: https://github.com/marketplace/actions/setup-miniconda | |
| # mamba: https://github.com/mamba-org/provision-with-micromamba | |
| name: Test lint, unittests, & builds | |
| on: | |
| push: | |
| branches: [main] | |
| pull_request: | |
| branches: [main] | |
| schedule: | |
| # Runs the schedule every day at 5:30 and at 17:30 UTC | |
| - cron: "30 5,17 * * *" | |
| jobs: | |
| lint-and-test: | |
| # Establishes the combination of all OS and python versions | |
| # for us to test. The "steps" below will be ran for each | |
| # of these combinations. | |
| name: Test (${{ matrix.python-version }}, ${{ matrix.os }}) | |
| runs-on: ${{ matrix.os }} | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| os: ["ubuntu-latest", "macos-latest", "windows-latest"] | |
| python-version: ["3.10", "3.11"] | |
| steps: | |
| - name: Initial setup | |
| uses: actions/checkout@v3 | |
| - name: Check code format with Black | |
| uses: psf/black@stable | |
| # This action seems poorly-maintained -- as it fails on MacOS and also | |
| # directly installs isort (unlike the action used for Black). I therefore | |
| # disable this for now. | |
| # - name: Check import format with iSort | |
| # uses: isort/isort-action@master | |
| # This is our original installation step using conda, but this is extremely | |
| # slow to solve the env. We therefore switched to using Mamba (see below), | |
| # and keep this section here for historical reference. | |
| # - name: Create conda env and install deps | |
| # uses: conda-incubator/setup-miniconda@v2 | |
| # with: | |
| # auto-update-conda: true | |
| # environment-file: .github/environment.yaml | |
| # python-version: ${{ matrix.python-version }} | |
| # auto-activate-base: false | |
| # channels: conda-forge | |
| # activate-environment: simmate_dev | |
| # channel-priority: strict | |
| # The lines "shell: bash -l {0}" ensure we use the created env below | |
| # We use Mamba instead of Conda for its faster solver. (see comment above) | |
| - name: Install Conda environment with Micromamba | |
| uses: mamba-org/provision-with-micromamba@main | |
| with: | |
| environment-file: envs/conda/dev.yaml | |
| environment-name: simmate_dev | |
| extra-specs: | | |
| python=${{ matrix.python-version }} | |
| - name: Install Simmate | |
| shell: bash -l {0} | |
| run: | | |
| pip install -e . | |
| - name: Check conda info | |
| shell: bash -l {0} | |
| run: | | |
| micromamba info | |
| micromamba list | |
| # !!! switch out micromamba/mamba/conda commands as needed | |
| - name: Check dependencies | |
| shell: bash -l {0} | |
| run: | | |
| pip check | |
| - name: Run default tests | |
| shell: bash -l {0} | |
| run: | | |
| pytest -vv --durations=15 | |
| # "-vv" makes the pytest output verbose so errors are more useful | |
| # and "duration=0" has pytest print how long every test took. We ask for | |
| # the 15 slowest ones. | |
| docker-build: | |
| name: Test Docker Build | |
| runs-on: ubuntu-latest | |
| permissions: | |
| contents: read | |
| packages: write | |
| steps: | |
| - name: Initial setup | |
| uses: actions/checkout@v3 | |
| - name: Build Docker image | |
| uses: docker/build-push-action@ad44023a93711e3deb337508980b4b5e9bcdc5dc | |
| with: | |
| context: . | |
| file: ./envs/docker/web_server.dockerfile | |
| push: false |