python-test.yml

# This workflow will install Python dependencies, run tests and lint with a single version of Python
# For more information see: https://help.github.com/actions/language-and-framework-guides/using-python-with-github-actions

name: CI-PyTest

on:
  push:
    branches: [master]
  pull_request: {}

jobs:
  full-test:
    runs-on: ubuntu-latest

    steps:
      - name: Checkout code
        uses: actions/checkout@v4

      - name: Call reusable workflow to install dependencies
        id: dependencies
        uses: ./.github/workflows/dependencies

      - name: Run generic unit tests
        if: ${{steps.dependencies.outputs.other_modified_files_count > 0}} # Run on any non-docs change
        run: |
          pytest --cov=. --cov-report=xml -k "generic"
      - name: Run classification unit tests with histology
        if: ${{steps.dependencies.outputs.other_modified_files_count > 0}} # Run on any non-docs change
        run: |
          pytest --cov=. --cov-report=xml --cov-append -k "classification and histology"
      - name: Run classification unit tests
        if: ${{steps.dependencies.outputs.other_modified_files_count > 0}} # Run on any non-docs change
        run: |
          pytest --cov=. --cov-report=xml --cov-append -k "classification and not histology"
      - name: Run segmentation unit tests
        if: ${{steps.dependencies.outputs.other_modified_files_count > 0}} # Run on any non-docs change
        run: |
          pytest --cov=. --cov-report=xml --cov-append -k "segmentation and not transunet"
      - name: Run regression unit tests
        if: ${{steps.dependencies.outputs.other_modified_files_count > 0}} # Run on any non-docs change
        run: |
          pytest --cov=. --cov-report=xml --cov-append -k "regression"
      - name: Run transunet unit tests
        if: ${{steps.dependencies.outputs.other_modified_files_count > 0}} # Run on any non-docs change
        run: |
          pytest --cov=. --cov-report=xml --cov-append -k "transunet"
      - name: Run entrypoints tests
        if: ${{steps.dependencies.outputs.other_modified_files_count > 0}} # Run on any non-docs change
        run: |
          pytest --cov=. --cov-report=xml --cov-append -k "entrypoints"
      - name: Run test for update_version
        if: ${{steps.dependencies.outputs.other_modified_files_count > 0}} # Run on any non-docs change
        run: |
          pytest --cov=. --cov-report=xml --cov-append -k "update_version"

      - name: Upload coverage
        if: ${{steps.dependencies.outputs.other_modified_files_count > 0}} # Run on any non-docs change
        uses: codecov/codecov-action@v1
        with:
          token: ${{ secrets.CODECOV_TOKEN }}
          file: ./coverage.xml
          flags: unittests

      - name: Upload coverage to Codacy
        if: github.ref == 'refs/heads/master' # only run when on master
        uses: codacy/codacy-coverage-reporter-action@v1.3.0
        with:
          project-token: ${{ secrets.CODACY_PROJECT_TOKEN }}
          coverage-reports: ./coverage.xml