Generating CDS template #227
Workflow file for this run
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name: Make JSON-LD | |
on: | |
pull_request: | |
branches: 'main' | |
paths: 'HTAN.model.csv' | |
workflow_dispatch: | |
concurrency: | |
# cancel the current running workflow from the same branch, PR when a new workflow is triggered | |
# when the trigger is not a PR but a push, it will use the commit sha to generate the concurrency group | |
# {{ github.workflow }}: the workflow name is used to generate the concurrency group. This allows you to have more than one workflows | |
# {{ github.ref_type }}: the type of Git ref object created in the repository. Can be either branch or tag | |
# {{ github.sha }}: full commit sha | |
# credit: https://github.com/Sage-Bionetworks-Workflows/sagetasks/blob/main/.github/workflows/ci.yml | |
group: >- | |
${{ github.workflow }}-${{ github.ref_type }}- | |
${{ github.sha }} | |
cancel-in-progress: true | |
env: | |
SCHEMATIC_VERSION: '24.2.1' | |
GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} | |
jobs: | |
lint: | |
name: Lint CSV | |
if: always() | |
runs-on: ubuntu-latest | |
steps: | |
- uses: actions/checkout@v3 | |
- name: csvlinter | |
uses: kcheriyath/[email protected] | |
with: | |
find_pattern: "*.csv" | |
validate: | |
name: Validate CSV | |
if: always() | |
runs-on: ubuntu-latest | |
steps: | |
- uses: actions/checkout@v4 | |
- uses: actions/setup-python@v5 | |
with: | |
python-version: '3.10' | |
- name: Install IPython | |
run: | | |
pip install ipython==8.18.1 | |
- name: Install Schematic | |
shell: bash | |
run: | | |
pip install schematicpy==$SCHEMATIC_VERSION | |
- name: Convert CSV schema | |
shell: bash | |
run: | | |
schematic schema convert .github/CSV.model.csv | |
- name: Validate data model CSV | |
shell: bash | |
run: | | |
schematic model -c .github/CSV_schematic_config.yml validate -mp HTAN.model.csv -dt "DataModel" | | |
grep "Your manifest has been validated successfully. There are no errors in your manifest, and it can be submitted without any modifications." | |
convert: | |
name: Convert CSV to JSON-LD | |
needs: | |
- lint | |
- validate | |
runs-on: ubuntu-latest | |
steps: | |
- uses: actions/checkout@v3 | |
- uses: actions/setup-python@v4 | |
with: | |
python-version: '3.10' | |
- name: Install IPython | |
run: | | |
pip install ipython==8.18.1 | |
- name: Install Schematic | |
shell: bash | |
run: | | |
pip install schematicpy==$SCHEMATIC_VERSION | |
- name: Convert .csv to .jsonld | |
shell: bash | |
run: | | |
schematic schema convert HTAN.model.csv | |
- uses: r-lib/actions/pr-fetch@v2 | |
with: | |
repo-token: ${{ secrets.GITHUB_TOKEN }} | |
- name: Commit the changes | |
run: | | |
# Specifying the full email allows the avatar to show up: https://github.com/orgs/community/discussions/26560 | |
git config --local user.name "github-actions[bot]" | |
git config --local user.email "41898282+github-actions[bot]@users.noreply.github.com" | |
git add HTAN.model.jsonld | |
git commit -m "GitHub Action: convert *.model.csv to *.model.jsonld" || echo "No changes to commit" | |
- uses: r-lib/actions/pr-push@v2 | |
with: | |
repo-token: ${{ secrets.GITHUB_TOKEN }} |