Git ci

.github/workflows/main.yml

@@ -0,0 +1,35 @@
+name: CI workflow
+
+# We can specify which Github events will trigger a CI build
+on: 
+  push:
+# now define a single job 'build' (but could define more, can be anything other than build)
+jobs:
+  build:
+    # we can also specify the OS to run tests on
+    runs-on: ${{ matrix.os }}
+    strategy: 
+      matrix:
+        os:
+          - ubuntu-latest
+          - windows-latest 
+          - macos-latest
+        python-version: ["3.12", "3.10"]
+    steps:
+      # Next we need to checkout out repository, and set up Python
+    # A 'name' is just an optional label shown in the log - helpful to clarify progress - and can be anything
+      - name: Checkout repository
+        uses: actions/checkout@v3
+
+      - name: Set up Python 3.9
+        uses: actions/setup-python@v3
+        with:
+            python-version: ${{ matrix.python-version }}
+      - name: Install Python Dependencies
+        run: |
+          python3 -m pip install --upgrade pip
+          pip3 install -r requirements.txt
+
+      - name: Test with Pytest
+        run: |
+          python -m pytest --cov=inflammation.models tests/test_models.py

.gitignore

@@ -12,3 +12,4 @@
 *.pyc
 *.egg-info
 .pytest_cache
+py_venv/

requirements.txt

@@ -0,0 +1,16 @@
+contourpy==1.3.0
+coverage==7.6.1
+cycler==0.12.1
+fonttools==4.54.1
+iniconfig==2.0.0
+kiwisolver==1.4.7
+matplotlib==3.9.2
+numpy==2.1.2
+packaging==24.1
+pillow==10.4.0
+pluggy==1.5.0
+pyparsing==3.1.4
+pytest==8.3.3
+pytest-cov==5.0.0
+python-dateutil==2.9.0.post0
+six==1.16.0

tests/test_models.py

@@ -3,6 +3,7 @@
 import numpy as np
 import numpy.testing as npt
 import os
+import pytest
 
 
 def test_daily_mean_zeros():
@@ -37,3 +38,76 @@ def test_load_from_json(tmpdir):
         temp_json_file.write('[{"observations":[1, 2, 3]},{"observations":[4, 5, 6]}]')
     result = load_json(example_path)
     npt.assert_array_equal(result, [[1, 2, 3], [4, 5, 6]])
+
+
+def test_daily_max():
+    from inflammation.models import daily_max
+
+    test_input = np.array([[4,2,5],
+                           [1,6,2],
+                           [4,1,9]])
+
+    test_result = np.array([4,6,9])
+
+    npt.assert_array_equal(daily_max(test_input), test_result)
+
+
+def test_daily_min():
+    from inflammation.models import daily_min
+    test_input = np.array([[4,-2,5],
+                          [1,-6,2],
+                          [-4,-1,9]])
+
+    test_result = np.array([-4,-6,2])
+
+
+    npt.assert_array_equal(daily_min(test_input), test_result)
+
+
+def test_daily_min_string(): 
+    from inflammation.models import daily_min
+    with pytest.raises(TypeError):
+        expected_error = test_daily_min([['Hello', 'there'], ['General', 'Kenobi']])
+
+
+@pytest.mark.parametrize(
+    "test, expected",
+    [
+        ([[0,0], [0,0], [0,0]], [0,0]),
+        ([[1,2], [3,4], [5,6]], [3,4])
+    ]
+)
+def test_daily_mean(test, expected):
+    """Test mean function works for array of zeroes and positive integers."""
+    from inflammation.models import daily_mean
+    npt.assert_array_equal(daily_mean(np.array(test)), np.array(expected))
+
+
+
+@pytest.mark.parametrize(
+    "test, expected",
+    [
+        ([ [0, 0, 0], [0, 0, 0], [0, 0, 0] ], [0, 0, 0]),
+        ([ [4, 2, 5], [1, 6, 2], [4, 1, 9] ], [4, 6, 9]),
+        ([ [4, -2, 5], [1, -6, 2], [-4, -1, 9] ], [4, -1, 9]),
+    ]
+)
+def test_daily_max(test, expected): 
+    from inflammation.models import daily_max
+    npt.assert_array_equal(daily_max(np.array(test)), np.array(expected))
+
+
+
+@pytest.mark.parametrize(
+    "test, expected", 
+    [
+        ([ [0, 0, 0], [0, 0, 0], [0, 0, 0] ], [0, 0, 0]),
+        ([ [4, 2, 5], [1, 6, 2], [4, 1, 9] ], [1, 1, 2]),
+        ([ [4, -2, 5], [1, -6, 2], [-4, -1, 9] ], [-4, -6, 2])
+
+    ]
+)
+def test_daily_min(test, expected):
+    from inflammation.models import daily_min
+
+    npt.assert_array_equal(daily_min(np.array(test)), np.array(expected))