Improve CI definitions

.github/workflows/main.yml

@@ -3,22 +3,46 @@ name: Local test
 
 on:
   push:
-    branches: [ "master", "my", "devel" ]
+    branches: [ "master", "devel" ]
   pull_request:
-    branches: [ "master", "my", "devel" ]
+    branches: [ "master", "devel" ]
 
 jobs:
-  build:
+  quicktest:
     runs-on: ubuntu-latest
     steps:
-    - uses: actions/checkout@v3
-    - name: Install dependencies
-      run: sudo apt-get update && sudo apt-get install -y python3 python3-pip mafft ncbi-blast+ && pip3 install pytest pytest-cov
-    - name: Run build
-      run: pip3 install .
-    - name: Run tests and collect coverage
-      run: pytest -v -m "not overnight" --cov=./src
-    - name: Upload coverage to Codecov
-      uses: codecov/codecov-action@v3
-      env:
-        CODECOV_TOKEN: ${{ secrets.CODECOV_TOKEN }}
+      - uses: actions/checkout@v3
+
+      - name: Install dependencies
+        run: sudo apt-get update && sudo apt-get install -y python3 python3-pip mafft ncbi-blast+
+
+      - name: Run build
+        run: pip3 install .[test]
+
+      - name: Run tests and collect coverage
+        run: pytest -v -m "not slow" --cov=./src
+
+      - name: Upload coverage to Codecov
+        uses: codecov/codecov-action@v3
+        env:
+          CODECOV_TOKEN: ${{ secrets.CODECOV_TOKEN }}
+
+  slowtest:
+    runs-on: ubuntu-latest
+
+    strategy:
+      fail-fast: false
+      matrix:
+        testcase: ["tests/test_end_to_end.py::test_large", "tests/test_end_to_end.py::test_large_csv", "tests/test_end_to_end.py::test_large_hxb2"]
+
+    steps:
+      - uses: actions/checkout@v3
+
+      - name: Install dependencies
+        run: sudo apt-get update && sudo apt-get install -y python3 python3-pip mafft ncbi-blast+
+
+      - name: Run build
+        run: pip3 install .[test]
+
+      - name: Run tests and collect coverage
+        run: pytest -v ${{ matrix.testcase }}