biii.eu bise ontology dump #64
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| name: biii.eu bise ontology dump | |
| on: | |
| workflow_dispatch: | |
| schedule: | |
| - cron: '0 3 * * 0' | |
| jobs: | |
| build-biii-bise-ont-dump: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v2 | |
| with: | |
| path: content | |
| - uses: actions/checkout@v2 | |
| with: | |
| repository: bio-tools/content-ecosystem-utils | |
| path: content-ecosystem-utils | |
| - name: Setup Python | |
| uses: actions/setup-python@v1 | |
| with: | |
| python-version: "3.7" | |
| - name: Install dependencies | |
| run: | |
| pip install -r ${{ github.workspace }}/content-ecosystem-utils/scripts/neubias/requirements.txt | |
| - name: dump Neubias biii.eu bioschemas into a single RDF file | |
| run: | | |
| cd ${{ github.workspace }}/content-ecosystem-utils/scripts/neubias | |
| python biseEU_LD_export.py -td http://biii.eu -dump -leg | |
| mv ${{ github.workspace }}/content-ecosystem-utils/scripts/neubias/bise-ontology-biii-dump.ttl ${{ github.workspace }}/content/datasets/ | |
| - name: commit new data and push to PR | |
| env: | |
| GITHUB_USER: ${{ secrets.GITHUB_USER }} | |
| GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} | |
| run: | | |
| cd ${{ github.workspace }}/content/datasets | |
| git config --local user.email "tpe-bot@github.com" | |
| git config --local user.name "Tools Platform Ecosystem bot" | |
| git add . | |
| if git commit -m "build bioschemas RDF dump on $(date)"; then | |
| git push origin HEAD | |
| echo "successfully created new data" | |
| else | |
| echo "nothing new to add, exiting" | |
| fi |