JSON Schemas v1.0.0 #92
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| # This workflow validates the current JSON documents against EGA's JSON schemas | |
| # using EGA's API endpoint (http://biovalidator.ega.ebi.ac.uk/validate) of | |
| # the tool Biovalidator (https://github.com/elixir-europe/biovalidator) and the | |
| # up-to-date EGA JSON schemas \ | |
| # (https://github.com/EbiEga/ega-metadata-schema/tree/main/schemas). | |
| # The logic of this workflow is: | |
| # - Details: EE-2575 | |
| # - Why: It allows us to know if the changes introduced in the branch are | |
| # compliant with the default (main branch) schemas. | |
| # - Would block the PR if failed? No, it's just informative. | |
| # - How: execute script .github/scripts/request_validation.py specifying the | |
| # EGA's API server endpoint and this new branch's JSON documents. | |
| # | |
| # For more information, check: | |
| # https://github.com/EbiEga/ega-metadata-schema/tree/main/docs/gh_workflows | |
| name: | | |
| [OPTIONAL] JSON docs validation - | |
| EGA API (json_validation_against_EGA_API.yml) | |
| on: | |
| # Executes on any commit to a PR to the "main" branch | |
| pull_request: | |
| branches: [main] | |
| jobs: | |
| validate-json-docs: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Checkout code | |
| uses: actions/checkout@v3 | |
| with: | |
| # Full git history | |
| fetch-depth: 0 | |
| - uses: actions/setup-python@v4 | |
| with: | |
| # We'll use the latest version of python from major 3 release | |
| # This bit is needed for running the following python script | |
| python-version: '3.x' | |
| - name: Cache pip | |
| uses: actions/cache@v4 | |
| with: | |
| # On subsequent runs, if the cache key matches (i.e., operating system and the hash of the requirements.txt file), | |
| # the dependencies are restored from the cache instead of being downloaded and installed again. | |
| path: ~/.cache/pip | |
| # combines the OS type and a hash of the requirements.txt file: the cache is specific to the dependencies listed | |
| key: ${{ runner.os }}-pip-${{ hashFiles('**/requirements.txt') }} | |
| restore-keys: | | |
| ${{ runner.os }}-pip- | |
| # If there is no cache for this key, we create it at the end of the run, even if there was an error mid-way | |
| save-always: true | |
| - name: Install dependencies | |
| run: | | |
| pip install --upgrade pip | |
| requirements_f="./.github/scripts/requirements.txt" | |
| if [ -f "$requirements_f" ]; then pip install -r "$requirements_f" --prefer-binary --verbose; fi | |
| - name: Validate JSON examples | |
| # Validate all JSON documents against their corresponding schemas | |
| # Check : | |
| # github.com/EbiEga/ega-metadata-schema/tree/main/.github/scripts | |
| run: | | |
| json_ex_dir="./examples/json_validation_tests" | |
| # The following URL points to EGA's server of Biovalidator | |
| url="http://biovalidator.ega.ebi.ac.uk/validate" | |
| python3 ./.github/scripts/request_validation.py "$json_ex_dir" "$url" |