Fix: import errors, all tests passing, coverage enabled

Author: sdirishguy

.github/workflows/ci.yml

@@ -12,45 +12,61 @@ jobs:
     strategy:
       matrix:
         python-version: [3.8, 3.9, "3.10", "3.11"]
-
     steps:
-    - name: Checkout code
-      uses: actions/checkout@v3
-    
-    - name: Set up Python ${{ matrix.python-version }}
-      uses: actions/setup-python@v4
-      with:
-        python-version: ${{ matrix.python-version }}
-    
-    - name: Install dependencies
-      run: |
-        python -m pip install --upgrade pip
-        pip install -r requirements.txt
-        pip install pytest pytest-cov
-    
-    - name: Run tests
-      run: |
-        python -m pytest tests/ -v
+      - name: Checkout code
+        uses: actions/checkout@v3
+
+      - name: Set up Python ${{ matrix.python-version }}
+        uses: actions/setup-python@v4
+        with:
+          python-version: ${{ matrix.python-version }}
+
+      - name: Cache pip
+        uses: actions/cache@v4
+        with:
+          path: ~/.cache/pip
+          key: ${{ runner.os }}-pip-${{ hashFiles('**/requirements.txt') }}
+          restore-keys: |
+            ${{ runner.os }}-pip-
+
+      - name: Install dependencies
+        run: |
+          python -m pip install --upgrade pip
+          pip install -r requirements.txt
+          pip install pytest pytest-cov
+
+      - name: Run tests with coverage
+        run: |
+          python -m pytest tests/ -v --cov=shellrosetta --cov-report=xml
+
+      - name: Upload coverage to Codecov
+        uses: codecov/codecov-action@v4
+        with:
+          token: ${{ secrets.CODECOV_TOKEN }}
+          files: ./coverage.xml
 
   lint:
     runs-on: ubuntu-latest
     steps:
-    - name: Checkout code
-      uses: actions/checkout@v3
-    
-    - name: Set up Python
-      uses: actions/setup-python@v4
-      with:
-        python-version: "3.11"
-    
-    - name: Install dependencies
-      run: |
-        python -m pip install --upgrade pip
-        pip install flake8 black mypy
-        pip install -r requirements.txt
-    
-    - name: Run linters
-      run: |
-        flake8 shellrosetta/ tests/ --max-line-length=88 --ignore=E501,W293,W291,W292,E302,E305,F401,F841 || true
-        black --check shellrosetta/ tests/ || true
-        mypy shellrosetta/ --ignore-missing-imports || true 
+      - name: Checkout code
+        uses: actions/checkout@v3
+
+      - name: Set up Python
+        uses: actions/setup-python@v4
+        with:
+          python-version: "3.11"
+
+      - name: Install dependencies
+        run: |
+          python -m pip install --upgrade pip
+          pip install flake8 black mypy
+          pip install -r requirements.txt
+
+      - name: Run flake8
+        run: flake8 shellrosetta/ tests/ --max-line-length=88 --ignore=E501,W293,W291,W292,E302,E305,F401,F841
+
+      - name: Run black
+        run: black --check shellrosetta/ tests/
+
+      - name: Run mypy
+        run: mypy shellrosetta/ --ignore-missing-imports