Include JSON metadata created by SCT #75
Workflow file for this run
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| # This is a basic workflow to help you get started with Actions | |
| name: CI | |
| # Controls when the action will run. | |
| on: | |
| # Triggers the workflow on push or pull request events but only for the master branch | |
| push: | |
| branches: [ master ] | |
| pull_request: | |
| branches: '*' | |
| # Allows you to run this workflow manually from the Actions tab | |
| workflow_dispatch: | |
| # A workflow run is made up of one or more jobs that can run sequentially or in parallel | |
| jobs: | |
| # This workflow contains a single job called "build" | |
| build: | |
| # The type of runner that the job will run on | |
| runs-on: ubuntu-latest | |
| # Steps represent a sequence of tasks that will be executed as part of the job | |
| steps: | |
| # Checks-out your repository under $GITHUB_WORKSPACE, so your job can access it | |
| - uses: actions/checkout@v4 | |
| - name: Install Python 3 | |
| uses: actions/setup-python@v4 | |
| with: | |
| python-version: 3.8.18 | |
| - name: Install dependencies | |
| run: | | |
| python -m pip install --upgrade pip | |
| pip install -r requirements.txt | |
| # https://github.com/spinalcordtoolbox/spinalcordtoolbox/blob/master/.ci.sh | |
| - name: Install SCT | |
| run: | | |
| git clone https://github.com/spinalcordtoolbox/spinalcordtoolbox.git | |
| cd spinalcordtoolbox | |
| ./.ci.sh -i | |
| # NB: install_sct edits ~/.bashrc, but those environment changes don't get passed to subsequent steps in GH Actions. | |
| # So, we filter through the .bashrc and pass the values to $GITHUB_ENV and $GITHUB_PATH. | |
| # Relevant documentation: https://docs.github.com/en/actions/reference/workflow-commands-for-github-actions#environment-files | |
| cat ~/.bashrc | grep "export SCT_DIR" | cut -d " " -f 2 >> $GITHUB_ENV | |
| cat ~/.bashrc | grep "export PATH" | grep -o "/.*" | cut -d ':' -f 1 >> $GITHUB_PATH | |
| - name: Run tests with pytest | |
| run: | | |
| python -m pytest -v tests/test_utils.py | |
| python -m pytest -v tests/test_ask_if_modify.py | |
| python -m pytest -v tests/test_create_json.py |