fix raw data preservation for unsupervised training #17
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| name: api-docs | |
| on: | |
| push: | |
| branches: [ master ] | |
| pull_request: | |
| branches: [ master ] | |
| jobs: | |
| build: | |
| if: | | |
| github.repository != 'CogStack/CogStack-ModelServe' && | |
| github.ref == 'refs/heads/master' && | |
| github.event_name == 'push' | |
| runs-on: ubuntu-latest | |
| strategy: | |
| matrix: | |
| python-version: [ 3.9 ] | |
| max-parallel: 1 | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: Set up Python ${{ matrix.python-version }} | |
| uses: actions/setup-python@v4 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| - name: Install dependencies | |
| run: | | |
| python -m pip install --upgrade pip | |
| pip install -r app/requirements.txt -r app/requirements-dev.txt | |
| - name: Check the CLI doc | |
| run: | | |
| typer app/cli/cli.py utils docs --output cli.md | |
| if ! cmp -s cli.md app/cli/README.md; then | |
| echo "The CMS CLI README needs updating" | |
| exit 1 | |
| fi | |
| - name: Generate API docs | |
| run: | | |
| python app/cli/cli.py export-model-apis --model-type medcat_snomed --add-training-apis --no-exclude-unsupervised-training --no-exclude-metacat-training --add-evaluation-apis --add-previews-apis | |
| python app/cli/cli.py export-model-apis --model-type medcat_icd10 --add-training-apis --no-exclude-unsupervised-training --no-exclude-metacat-training --add-evaluation-apis --add-previews-apis | |
| python app/cli/cli.py export-model-apis --model-type medcat_umls --add-training-apis --no-exclude-unsupervised-training --no-exclude-metacat-training --add-evaluation-apis --add-previews-apis | |
| python app/cli/cli.py export-model-apis --model-type anoncat --add-training-apis --add-evaluation-apis --add-previews-apis --exclude-metacat-training --exclude-unsupervised-training | |
| python app/cli/cli.py export-model-apis --model-type transformers_deid --add-training-apis --add-evaluation-apis --add-previews-apis --exclude-metacat-training --exclude-unsupervised-training | |
| python app/cli/cli.py export-openapi-spec | |
| git fetch origin gh-pages:gh-pages | |
| git checkout gh-pages | |
| mv ./medcat_snomed_model_apis.json ./docs/medcat_snomed_model_apis.json | |
| mv ./medcat_icd10_model_apis.json ./docs/medcat_icd10_model_apis.json | |
| mv ./medcat_umls_model_apis.json ./docs/medcat_umls_model_apis.json | |
| mv ./anoncat_model_apis.json ./docs/anoncat_model_apis.json | |
| mv ./transformers_deid_model_apis.json ./docs/transformers_deid_model_apis.json | |
| mv ./cogstack_model_serve_apis.json ./docs/cogstack_model_serve_apis.json | |
| git config --global user.name "Xi Bai" | |
| git config --global user.email "[email protected]" | |
| git add ./docs/medcat_snomed_model_apis.json ./docs/medcat_icd10_model_apis.json ./docs/medcat_umls_model_apis.json ./docs/anoncat_model_apis.json ./docs/transformers_deid_model_apis.json ./docs/cogstack_model_serve_apis.json | |
| if [[ `git status --porcelain --untracked-files=no` ]]; then | |
| git commit -m "update api docs" | |
| else | |
| echo "No API doc changes detected and publishing skipped." | |
| exit 0 | |
| fi | |
| - name: Update API docs | |
| uses: ad-m/github-push-action@master | |
| with: | |
| branch: gh-pages | |
| github_token: ${{ secrets.GITHUB_TOKEN }} |