Merge pull request #458 from tcezard/taxonomy_and_assembly #1004
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: Run tests | |
| on: | |
| push: | |
| branches: [ master ] | |
| pull_request: | |
| # Temporarily run tests on the feature branch until merged to master | |
| branches: [ master, feature/ws-contig-alias-integration ] | |
| jobs: | |
| build: | |
| runs-on: ubuntu-latest | |
| strategy: | |
| matrix: | |
| mongodb-version: [4.0.18] | |
| java-version: [1.8] | |
| python-version: [3.7] | |
| steps: | |
| - uses: actions/checkout@v2 | |
| - name: Setup Java JDK | |
| uses: actions/[email protected] | |
| # The Java version to make available on the path. Takes a whole or semver Java version, or 1.x syntax (e.g. 1.8 => Java 8.x). Early access versions can be specified in the form of e.g. 14-ea, 14.0.0-ea, or 14.0.0-ea.28 | |
| with: | |
| java-version: ${{ matrix.java-version }} | |
| - name: Set up Python ${{ matrix.python-version }} | |
| uses: actions/setup-python@v2 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| - name: Install Python dependencies | |
| run: | | |
| python -m pip install --upgrade pip | |
| pip install numpy pandas psycopg2-binary pgpasslib | |
| - name: Install and Start MongoDB | |
| run: | | |
| wget http://fastdl.mongodb.org/linux/mongodb-linux-x86_64-${{ matrix.mongodb-version }}.tgz | |
| tar xfz mongodb-linux-x86_64-${{ matrix.mongodb-version }}.tgz | |
| export PATH=`pwd`/mongodb-linux-x86_64-${{ matrix.mongodb-version }}/bin:$PATH | |
| mkdir -p data/db | |
| mongod --dbpath=data/db & | |
| mongod --version | |
| - name: Run Maven tests | |
| run: mvn test | |
| - name: Run Python tests | |
| run: | | |
| cd eva-accession-import-automation | |
| python -m tests.test_generate_custom_assembly_report -v |