Bump werkzeug from 3.0.3 to 3.0.6 #809
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| 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 |