changes to update obo and owl update #6
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| name: OWL file validation | |
| on: | |
| push: | |
| branches: [master, dev] | |
| pull_request: | |
| branches: [master, dev] | |
| jobs: | |
| build: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Checkout code | |
| uses: actions/checkout@v3 | |
| - name: Set up JDK 11 | |
| uses: actions/setup-java@v3 | |
| with: | |
| distribution: 'temurin' # Install JDK from Eclipse Adoptium | |
| java-version: '11' | |
| - name: Cache Maven packages | |
| uses: actions/cache@v3 | |
| with: | |
| path: ~/.m2 | |
| key: ${{ runner.os }}-maven-${{ hashFiles('**/pom.xml') }} | |
| restore-keys: | | |
| ${{ runner.os }}-maven- | |
| - name: Set up Maven | |
| run: mvn -v | |
| - name: Build OLS dataload | |
| run: | | |
| git clone https://github.com/EBISPOT/ols4 | |
| cd ols4/ols-shared/ | |
| mvn clean install | |
| cd ../../ols4/dataload/rdf2json | |
| mvn clean install | |
| - name: Validate OWL File for OLS | |
| run: | | |
| cd ols4/dataload/rdf2json/target | |
| wget https://raw.githubusercontent.com/PRIDE-Archive/pride-ontology/dev/validate-owl/foundry.json | |
| wget https://raw.githubusercontent.com/PRIDE-Archive/pride-ontology/dev/validate-owl/fail_owl.json | |
| java -jar rdf2json-1.0-SNAPSHOT.jar --config foundry.json --output foundry_out.json | |
| if diff foundry_out.json fail_owl.json > /dev/null; then | |
| echo "The PRIDE ontology has an error in the owl file and do not allow to import in OLS" | |
| exit 1 | |
| else | |
| echo "PRIDE Ontology is valid" | |
| fi |