biii.eu bise ontology dump #92
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: 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 "[email protected]" | |
| 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 |