TVB-3100 Document installation of tvb-data from zenodo #1
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| name: Test Py | |
| on: [push] | |
| jobs: | |
| build: | |
| name: Test and Inspect | |
| runs-on: ubuntu-latest | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| python-version: [ "3.8", "3.9", "3.10" ] | |
| steps: | |
| - uses: actions/checkout@v3 | |
| with: | |
| fetch-depth: 0 # Shallow clones should be disabled for a better relevancy of analysis | |
| - name: set up Python ${{ matrix.python-version }} | |
| uses: actions/setup-python@v4 | |
| id: setPy | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| - name: put ~/.local/bin on $PATH | |
| run: echo "PATH=$HOME/.local/bin:$PATH" >> $GITHUB_ENV | |
| # - name: cache ~/.local for pip deps | |
| # id: cache-local | |
| # uses: actions/cache@v3 | |
| # with: | |
| # path: ~/.local | |
| # key: pip--${{ steps.setPy.outputs.version }}-${{ hashFiles('tvb_framework/requirements.txt') }} | |
| - name: install tools and dependencies | |
| # if: steps.cache-local.outputs.cache-hit != 'true' | |
| run: | | |
| sudo apt-get update | |
| sudo apt install libbz2-dev libhdf5-serial-dev liblzo2-dev | |
| python3 -m pip install --upgrade setuptools==59.8.0 pip wheel | |
| pip3 install --user --upgrade numpy | |
| python3 -m pip install scikit-build | |
| pip3 install --user -r tvb_framework/requirements.txt | |
| pip3 install --user --no-build-isolation tvb-gdist | |
| - name: setup tvb | |
| run: | | |
| cd tvb_build | |
| bash install_full_tvb.sh | |
| - name: cache data | |
| id: cache-data | |
| uses: actions/cache@v3 | |
| with: | |
| path: tvb_data | |
| key: tvb-data | |
| - name: download data | |
| if: steps.cache-data.outputs.cache-hit != 'true' | |
| run: | | |
| wget -q https://zenodo.org/record/10128131/files/tvb_data.zip?download=1 -O tvb_data.zip | |
| mkdir tvb_data | |
| unzip tvb_data.zip -d tvb_data | |
| rm tvb_data.zip | |
| - name: setup data | |
| run: | | |
| cd tvb_data | |
| python3 setup.py develop | |
| - name: run library tests | |
| run: pytest -v tvb_library --cov --cov-report=xml && mv coverage.xml coverage-library.xml | |
| - name: run framework tests | |
| env: | |
| HBP_AUTH_TOKEN: ${{ secrets.HBP_AUTH_TOKEN }} # token or (secret+id) are needed for siibra tests | |
| KEYCLOAK_CLIENT_ID: ${{ secrets.KEYCLOAK_CLIENT_ID }} # KEYCLOAK_CLIENT_ID & SECRET have priority in tests | |
| KEYCLOAK_CLIENT_SECRET: ${{ secrets.KEYCLOAK_CLIENT_SECRET }} | |
| run: pytest -v tvb_framework --cov --cov-report=xml --ignore=tvb_framework/tvb/interfaces/rest/client/tests/rest_test.py && mv coverage.xml coverage-framework.xml | |
| - name: run storage tests | |
| run: pytest -v tvb_storage --cov --cov-report=xml && mv coverage.xml coverage-storage.xml | |
| - name: Prepare PATH for Sonar | |
| run: | | |
| echo "PATH=$PATH:/opt/sonar-scanner/bin:/opt/nodejs/bin" >> $GITHUB_ENV | |
| - name: SonarCloud Scan | |
| uses: SonarSource/sonarcloud-github-action@master | |
| env: | |
| GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} # Needed to get PR information, if any | |
| SONAR_TOKEN: ${{ secrets.SONAR_TOKEN }} |