Bump jinja2 from 3.0.3 to 3.1.3 #706
Workflow file for this run
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| name: Lint and test | |
| on: ["push", "pull_request"] | |
| jobs: | |
| lint: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Checkout | |
| uses: actions/checkout@v2 | |
| - uses: actions/setup-python@v1 | |
| with: | |
| python-version: 3.11 | |
| - name: Install flake8 | |
| run: pip install flake8 | |
| - name: Flake8 | |
| run: flake8 askomics tests cli --ignore=E501,W504 | |
| node_test: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v2 | |
| - uses: actions/setup-node@v2-beta | |
| with: | |
| node-version: '10' | |
| - name: Install modules | |
| run: make install-js MODE=dev | |
| - name: Run ESLint | |
| run: make eslint MODE=dev TRAVIS=true | |
| py_test: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Checkout | |
| uses: actions/checkout@v2 | |
| - uses: actions/setup-python@v1 | |
| with: | |
| python-version: 3.11 | |
| - name: Update apt cache | |
| run: sudo apt-get update | |
| - name: Install python-ldap deps | |
| run: sudo apt-get install libldap2-dev libsasl2-dev | |
| - name: Install python dev deps | |
| run: pip install ephemeris coveralls | |
| - name: Install deps | |
| run: make install-python MODE=dev | |
| - name: Launch containers | |
| run: | | |
| docker pull redis:4.0 | |
| docker pull askomics/virtuoso:7.2.5.1 | |
| docker pull bgruening/galaxy-stable:20.05 | |
| docker pull xgaia/corese:latest | |
| docker pull xgaia/isql-api:2.1.1 | |
| docker pull xgaia/simple-ldap:latest | |
| docker run -d --name virtuoso -p 8891:8890 -p 1112:1111 -e DBA_PASSWORD=dba -e DEFAULT_GRAPH=http://localhost:8891/DAV -t askomics/virtuoso:7.2.5.1 /bin/sh -c "netstat -nr | grep '^0\.0\.0\.0' | grep -oE '((1?[0-9][0-9]?|2[0-4][0-9]|25[0-5])\.){3}(1?[0-9][0-9]?|2[0-4][0-9]|25[0-5])' | grep -v '^0\.0\.0\.0' | sed 's/$/ askomics-host/' >> /etc/hosts && /virtuoso/virtuoso.sh" | |
| sleep 1m | |
| docker run -d --name redis -p 6380:6379 -t redis:4.0 | |
| docker run -d --name galaxy -p 8081:80 -t bgruening/galaxy-stable:20.05 | |
| docker run -d --name corese -p 8082:8080 -t xgaia/corese:latest /bin/sh -c "netstat -nr | grep '^0\.0\.0\.0' | grep -oE '((1?[0-9][0-9]?|2[0-4][0-9]|25[0-5])\.){3}(1?[0-9][0-9]?|2[0-4][0-9]|25[0-5])' | grep -v '^0\.0\.0\.0' | sed 's/$/ askomics-host/' >> /etc/hosts && /corese/start.sh" | |
| docker run -d --name isql-api -p 5051:5050 -e VIRTUOSO_HOST=askomics-host -e VIRTUOSO_ISQL_PORT=1112 -t xgaia/isql-api:2.1.1 /bin/sh -c "netstat -nr | grep '^0\.0\.0\.0' | grep -oE '((1?[0-9][0-9]?|2[0-4][0-9]|25[0-5])\.){3}(1?[0-9][0-9]?|2[0-4][0-9]|25[0-5])' | grep -v '^0\.0\.0\.0' | sed 's/$/ askomics-host/' >> /etc/hosts && sh /isqlapi/docker-run.sh" | |
| docker run -d --name ldap -p 8389:389 -e ORGANISATION_NAME=AskOmics -e SUFFIX='dc=askomics,dc=org' -e ROOT_USER=admin -e ROOT_PW_CLEAR=admin -e FIRST_USER=true -e USER_UID=jwick -e USER_GIVEN_NAME=John -e USER_SURNAME=Wick -e [email protected] -e USER_PW_CLEAR=jwick -t xgaia/simple-ldap:latest | |
| galaxy-wait -g http://localhost:8081 --timeout 900 | |
| echo "Galaxy is online, waiting a bit more for admin user creation" | |
| sleep 1m | |
| - name: Run tests | |
| run: | | |
| make pytest MODE=dev TRAVIS=true | |
| - name: Coveralls | |
| env: | |
| GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} | |
| run: | | |
| coveralls |