github action to run tests (#65)

Re-enable the test suite using github actions and modern python infrastructure.

Co-authored-by: Mahdi Qezlou <[email protected]>

.github/workflows/python-publish.yml

@@ -30,8 +30,13 @@ jobs:
       run: |
         python -m pip install --upgrade pip
         pip install build
+        pip install -r requirements.txt
+        sudo apt update
+        sudo apt install -y libgsl-dev libboost-test-dev
     - name: Build package
-      run: python -m build
+      run: |
+        git submodule update --init --recursive
+        python -m build
     - name: Publish package
       uses: pypa/gh-action-pypi-publish@27b31702a0e7fc50959f5ad993c78deac1bdfc29
       with:

.github/workflows/tests.yml

@@ -0,0 +1,41 @@
+# main test workflow; ported from .travis.yaml
+
+name: tests
+
+on:
+  push:
+    branches: [ '*', $default-branch ]
+  pull_request:
+    branches: [ $default-branch ]
+
+jobs:
+  build:
+    runs-on: ubuntu-latest
+    defaults:
+      run:
+        shell: bash -l {0}
+    steps:
+    - uses: actions/checkout@v3
+    - name: Set up Python
+      uses: actions/setup-python@v3
+      with:
+        python-version: '3.x'
+        cache: 'pip'
+    - name: Install dependencies
+      run: |
+        python -m pip install --upgrade pip
+        pip install -r requirements.txt
+        pip install build pytest
+        sudo apt update
+        sudo apt install -y libgsl-dev libboost-test-dev
+    - name: Build
+      run: |
+        git submodule update --init --recursive
+        python3 -m build
+    - name: Install
+      run:
+        python3 -m pip install --user dist/fake_spectra*.whl
+    - name: Python unit tests
+      run: pytest
+    - name: Boost unit tests
+      run: make test

fake_spectra/tests/test_rate_network.py

@@ -1,6 +1,5 @@
 """Tests for the rate network."""
 
-import time
 import numpy as np
 from fake_spectra import rate_network
 from fake_spectra import ratenetworkspectra
@@ -59,15 +58,12 @@ def testRateNetwork():
     neuts2 = rates2.get_neutral_fraction(dens, 100.)/(0.76*dens)
     ii = np.where(dens < 1e-4)
     assert np.all(np.abs(neuts[ii]/neuts2[ii] -1.) < 2e-2)
-    before = time.clock()
     ntests = 100
     for i in range(ntests):
         nH_bench = ((1.*i)/ntests-1e-6)
         for j in range(ntests):
             uu_bench = ((2.e5*j)/ntests + 200.)
             rates2.get_temp(nH_bench, uu_bench)
-    after = time.clock()
-    print(after-before)
 
 def test_heatingcooling_rate():
     """Test the cooling rate."""

pyproject.toml

@@ -0,0 +1,9 @@
+[build-system]
+# Minimum requirements for the build system to execute.
+requires = [
+    "setuptools",
+    "wheel",
+    "numpy",
+    "scipy",
+    "h5py",
+]

requirements.txt

@@ -0,0 +1,4 @@
+wheel
+numpy
+scipy
+h5py