Merge pull request #58 from vc1492a/gh_actions_ci_cd

Move continuous integration from Travis CI to Github Actions

.github/workflows/tests.yml

@@ -0,0 +1,72 @@
+# 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
+
+name: tests
+
+on:
+  push:
+    branches: [ "main", "dev" ]
+  pull_request:
+    branches: [ "main", "dev" ]
+
+jobs:
+  # there is no python3.6 available on newer ubuntu instances
+  # so we have this one to run on ubuntu-20.04
+  test-python36:
+    runs-on: ubuntu-20.04
+    strategy:
+      fail-fast: false
+      matrix:
+        python-version: ["3.6"]
+
+    steps:
+    - uses: actions/checkout@v4
+    - 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
+        pip install -r requirements.txt
+        pip install -r requirements_ci.txt
+    - name: Lint with flake8
+      run: |
+        # stop the build if there are Python syntax errors or undefined names
+        flake8 . --count --exit-zero --select=E9,F63,F7,F82 --show-source --statistics
+        # exit-zero treats all errors as warnings. The GitHub editor is 127 chars wide
+        flake8 . --count --exit-zero --max-complexity=10 --max-line-length=127 --statistics
+    - name: Test with pytest
+      run: |
+        pytest --cov=PyNomaly
+  
+  test:
+
+    runs-on: ubuntu-latest
+    strategy:
+      fail-fast: false
+      matrix:
+        python-version: ["3.7", "3.8", "3.9", "3.10", "3.11", "3.12"]
+
+    steps:
+    - uses: actions/checkout@v4
+    - 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
+        pip install -r requirements.txt
+        pip install -r requirements_ci.txt
+    - name: Lint with flake8
+      run: |
+        # stop the build if there are Python syntax errors or undefined names
+        flake8 . --count --exit-zero --select=E9,F63,F7,F82 --show-source --statistics
+        # exit-zero treats all errors as warnings. The GitHub editor is 127 chars wide
+        flake8 . --count --exit-zero --max-complexity=10 --max-line-length=127 --statistics
+    - name: Test with pytest
+      run: |
+        pytest --cov=PyNomaly

readme.md

@@ -7,7 +7,7 @@ scores in the range of [0,1] that are directly interpretable as the probability
 [![License](https://img.shields.io/badge/License-Apache%202.0-blue.svg)](https://opensource.org/licenses/Apache-2.0)
 [![PyPi](https://img.shields.io/badge/pypi-0.3.3-blue.svg)](https://pypi.python.org/pypi/PyNomaly/0.3.3)
 ![](https://img.shields.io/pypi/dm/PyNomaly.svg?logoColor=blue)
-[![Build Status](https://travis-ci.org/vc1492a/PyNomaly.svg?branch=main)](https://travis-ci.org/vc1492a/PyNomaly)
+![Tests](https://github.com/vc1492a/PyNomaly/actions/workflows/tests.yml/badge.svg)
 [![Coverage Status](https://coveralls.io/repos/github/vc1492a/PyNomaly/badge.svg?branch=main)](https://coveralls.io/github/vc1492a/PyNomaly?branch=main)
 [![JOSS](http://joss.theoj.org/papers/f4d2cfe680768526da7c1f6a2c103266/status.svg)](http://joss.theoj.org/papers/f4d2cfe680768526da7c1f6a2c103266)
 

tests/test_loop.py

@@ -4,8 +4,9 @@
 from PyNomaly import loop
 
 import logging
+from typing import Tuple
 import numpy as np
-from numpy.testing import assert_array_equal
+from numpy.testing import assert_array_equal, assert_array_almost_equal
 import pandas as pd
 import pytest
 from sklearn.datasets import load_iris
@@ -52,7 +53,7 @@ def X_n8() -> np.ndarray:
 
 
 @pytest.fixture()
-def X_n20_scores() -> tuple[np.ndarray, np.ndarray]:
+def X_n20_scores() -> Tuple[np.ndarray, np.ndarray]:
     """
     Fixture that returns a tuple containing a 20 element numpy array
     and the precalculated loOP scores based on that array.
@@ -153,7 +154,7 @@ def test_regression(X_n20_scores) -> None:
     input_data, expected_scores = X_n20_scores
     clf = loop.LocalOutlierProbability(input_data).fit()
     scores = clf.local_outlier_probabilities
-    assert np.array_equal(scores, expected_scores)
+    assert_array_almost_equal(scores, expected_scores, 6)
 
 
 def test_loop_performance(X_n120) -> None: