Merge pull request #563 from AllenInstitute/release-2.0.0 #9
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| name: ci/github-actions | |
| on: | |
| pull_request: | |
| branches: [ master, feature/** ] | |
| push: | |
| branches: [ master, feature/** ] | |
| jobs: | |
| run-light-tests: | |
| env: | |
| SKIP_LIMS: true | |
| TEST_INHOUSE: false | |
| ALLOW_TEST_DOWNLOADS: false | |
| TEST_API_ENDPOINT: "http://api.brain-map.org" | |
| IPFX_TEST_TIMEOUT: 60 | |
| runs-on: ubuntu-latest | |
| strategy: | |
| matrix: | |
| python-version: ["3.9", "3.11"] | |
| steps: | |
| - uses: actions/checkout@v3 | |
| - name: Set up Python ${{ matrix.python-version }} | |
| uses: actions/setup-python@v4 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| - name: Install dependencies | |
| run: | | |
| sudo apt-get update | |
| sudo apt-get install -y hdf5-tools curl | |
| python -m pip install --upgrade pip | |
| pip install -r requirements.txt | |
| pip install allensdk | |
| - name: Run tests | |
| run: | | |
| pip install -r requirements-test.txt | |
| mkdir -p test-results | |
| git lfs install | |
| git config lfs.url 'https://github.com/AllenInstitute/ipfx.git/info/lfs' | |
| git lfs env | |
| git lfs pull | |
| python -m pytest --junitxml=test-results/junit.xml --verbose | |
| onprem-tests: | |
| name: on-prem tests | |
| runs-on: ["self-hosted"] | |
| strategy: | |
| matrix: | |
| image: ["ipfx_py39:latest", "ipfx_py311:latest"] | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: run test in docker | |
| run: | | |
| docker run \ | |
| --env-file ~/env.list \ | |
| --mount type=bind,source=$PWD,target=/local1/github_worker,bind-propagation=rshared \ | |
| -v /data/informatics/module_test_data/:/data/informatics/module_test_data/ \ | |
| -v /allen/aibs/informatics/module_test_data/:/allen/aibs/informatics/module_test_data/ \ | |
| -v /allen/programs/celltypes/production/mousecelltypes/:/allen/programs/celltypes/production/mousecelltypes/ \ | |
| -v /allen/programs/celltypes/workgroups/279/:/allen/programs/celltypes/workgroups/279/ \ | |
| -v /allen/programs/celltypes/production/humancelltypes/:/allen/programs/celltypes/production/humancelltypes/ \ | |
| --workdir /local1/github_worker --rm \ | |
| --user 1001:1001 \ | |
| ${{ matrix.image }} \ | |
| /bin/bash -c "python -m venv .venv; \ | |
| source .venv/bin/activate; \ | |
| pip install --upgrade pip; \ | |
| pip install numpy; \ | |
| pip install -r requirements.txt; \ | |
| export TEST_API_ENDPOINT=http://api.brain-map.org; \ | |
| export SKIP_LIMS=false; \ | |
| export TEST_INHOUSE=true; \ | |
| export ALLOW_TEST_DOWNLOADS=true; \ | |
| export IPFX_TEST_TIMEOUT=60; \ | |
| pip install -r requirements-test.txt; \ | |
| git config lfs.url 'https://github.com/AllenInstitute/ipfx.git/info/lfs'; \ | |
| git lfs env; \ | |
| git lfs pull; \ | |
| python -m pytest \ | |
| --junitxml=test-reports/test.xml --verbose" |