run tests in workflow

.github/workflows/python-package.yml

@@ -1,13 +1,13 @@
-# This workflow will install Python dependencies, run tests and lint with a variety of Python versions
-# For more information see: https://docs.github.com/en/actions/automating-builds-and-tests/building-and-testing-python
+# This workflow will install Python dependencies,
+# run tests and lint with a variety of Python versions/
 
-name: Python package
+name: Tests
 
 on:
   push:
-    branches: [ "main" ]
+    branches: ["main"]
   pull_request:
-    branches: [ "main" ]
+    branches: ["main"]
 
 jobs:
   build:
@@ -19,13 +19,34 @@ jobs:
         python-version: ["3.9", "3.10", "3.11"]
 
     steps:
-    - uses: actions/checkout@v3
-    - name: Set up Python ${{ matrix.python-version }}
-      uses: actions/setup-python@v3
-      with:
-        python-version: ${{ matrix.python-version }}
-    - name: Install dependencies
-      run: |
-        python -m pip install --upgrade pip
-        python -m pip install flake8 pytest
-        if [ -f requirements.txt ]; then pip install -r requirements.txt; fi
+      - uses: actions/checkout@v3
+      - name: Set up Python ${{ matrix.python-version }}
+        uses: actions/setup-python@v3
+        with:
+          python-version: ${{ matrix.python-version }}
+      - name: Install dependencies
+        run: |
+          python3 -m pip install -U pip
+          python3 -m pip install -U setuptools setuptools_scm pep517
+          python3 -m pip install -e .
+
+
+      - name: Run tests
+        run: |
+         pip install pytest
+         pip install pytest-cov
+         pytest --cov=src/cortecs --cov-report=xml
+
+      - name: Upload coverage reports to Codecov
+        uses: codecov/codecov-action@v3
+        env:
+          CODECOV_TOKEN: ${{ secrets.CODECOV_TOKEN }}
+        with:
+          directory: ./coverage/reports/
+          env_vars: OS,PYTHON
+          fail_ci_if_error: true
+          files: ./coverage.xml
+          flags: unittests
+          name: codecov-umbrella
+          path_to_write_report: ./coverage/codecov_report.txt
+          verbose: true