Switch to github actions from travis (#402)

Travis.org is now dead, meaning our existing CI won't upload to PyPI any more. Let's use this as an opportunity to switch to github actions, which is more convenient. Some of the CI runs are slower, but github actions runs more things in parallel so overall it feels like an improvement. For now we disable the no-jit test, as it has been failing for a while.
pygae · Jul 5, 2021 · d1b45eb · d1b45eb
1 parent 9e29823
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diff --git a/.github/workflows/python-package.yml b/.github/workflows/python-package.yml
@@ -0,0 +1,170 @@
+name: Python package
+
+on:
+  push:
+    branches: [ master ]
+  pull_request:
+    branches: [ master ]
+
+jobs:
+  lint:
+    runs-on: ubuntu-latest
+    strategy:
+      fail-fast: false
+      matrix:
+        python-version: [3.8]
+    name: "lint | Python ${{ matrix.python-version }}"
+    steps:
+    - uses: actions/checkout@v2
+    - name: Set up Python ${{ matrix.python-version }}
+      uses: actions/setup-python@v2
+      with:
+        python-version: ${{ matrix.python-version }}
+    - name: Install dependencies
+      run: |
+        python -m pip install --upgrade pip
+        pip install flake8
+        pip install .
+    - name: Setup flake8 annotations
+      uses: rbialon/flake8-annotations@v1
+    - name: Run flake8
+      run: |
+        flake8 clifford --show-source --statistics
+
+  test:
+    defaults:
+      run:
+        # conda needs this to activate environments properly
+        shell: bash -l {0}
+    needs: lint
+    runs-on: ubuntu-latest
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          # fastest jobs first
+          # This job currently fails
+          # - python-version: 3.8
+          #   name: without JIT
+          #   disable_jit: 1
+          - python-version: 3.8
+            name: doctests
+            mode: doctests
+          # really slow job next, so it runs in parallel with the others
+          - python-version: 3.8
+            name: slow tests
+            mode: very_slow
+          - python-version: 3.5
+            name: default
+          - python-version: 3.8
+            name: default
+          - python-version: 3.8
+            name: conda
+            conda: true
+          - python-version: 3.8
+            name: benchmarks
+            mode: bench
+
+    name: "build | ${{ matrix.name }} | Python ${{matrix.python-version}}"
+    steps:
+    - uses: actions/checkout@v2
+
+    # python / pip
+    - name: Set up Python ${{ matrix.python-version }}
+      if: "!matrix.conda"
+      uses: actions/setup-python@v2
+      with:
+        python-version: ${{ matrix.python-version }}
+    - name: Install dependencies
+      if: "!matrix.conda"
+      run: |
+        python -m pip install --upgrade pip;
+        pip install . --prefer-binary;
+        # test dependencies
+        pip install --upgrade pytest pytest-cov pytest-benchmark IPython
+        
+    # conda
+    - name: Set up Python ${{ matrix.python-version }} (conda)
+      if: matrix.conda
+      uses: conda-incubator/setup-miniconda@v2
+      with:
+        auto-update-conda: true
+        python-version: ${{ matrix.python-version }}
+    - name: Install dependencies (conda)
+      if: matrix.conda
+      run: |
+        echo $CONDA/bin >> $GITHUB_PATH;
+        conda install \
+          "numpy>=1.17.0" \
+          scipy \
+          pip \
+          IPython \
+          h5py;
+        conda install -c conda-forge sparse;
+        conda install -c numba "numba>=0.45.1";
+        # make sure in conda we do not overwrite dependencies with pip
+        python setup.py develop --no-deps;
+        # test dependencies
+        python -m pip install --upgrade pytest pytest-cov pytest-benchmark;
+
+    - name: Test with pytest
+      env:
+        MODE: ${{ matrix.mode }}
+        NUMBA_DISABLE_JIT: ${{ matrix.disable_jit }}
+      run: |
+        PYTEST_ARGS=();
+        if [[ "${MODE}" == "bench" ]]; then
+          PYTEST_ARGS+=(--benchmark-only);
+        else
+          PYTEST_ARGS+=(--benchmark-skip);
+        fi;
+        if [[ "${MODE}" == "very_slow" ]]; then
+          PYTEST_ARGS+=(-m "veryslow");
+        else
+          PYTEST_ARGS+=(-m "not veryslow");
+        fi;
+        if [[ "${MODE}" == "doctests" ]]; then
+          PYTEST_ARGS+=(--doctest-modules --ignore clifford/test);
+        fi;
+
+        # `python -m` ensures we dispatch to conda if appropriate
+        python -m pytest \
+          "${PYTEST_ARGS[@]}" \
+          --color=yes \
+          -o junit_family=legacy \
+          --junitxml=junit/test-results.xml \
+          --durations=25 \
+          --cov=clifford \
+          --cov-branch;
+    # This only publishes result for the last run right now
+    # - name: Publish Test Report
+    #   uses: mikepenz/action-junit-report@v2
+    #   if: ${{ always() }}
+    #   with:
+    #     report_paths: 'junit/test-results.xml'
+    - uses: codecov/codecov-action@v1
+
+  deploy:
+    needs: test
+    runs-on: ubuntu-latest
+    name: deploy
+    steps:
+    - uses: actions/checkout@v2
+    - name: Set up Python ${{ matrix.python-version }}
+      uses: actions/setup-python@v2
+      with:
+        python-version: ${{ matrix.python-version }}
+    - name: "Install"
+      run: |
+        python -m pip install --upgrade pip;
+        python -m pip install build
+        python -m build --sdist --wheel --outdir dist/
+    - uses: actions/upload-artifact@v2
+      with:
+        name: dist
+        path: dist
+    - uses: pypa/gh-action-pypi-publish@release/v1
+      if: github.event_name == 'push' && startsWith(github.ref, 'refs/tags/v')
+      with:
+        user: __token__
+        password: ${{ secrets.PYPI_PASSWORD }}
diff --git a/.travis.yml b/.travis.yml
diff --git a/README.md b/README.md
@@ -5,7 +5,7 @@
 [![DOI](https://zenodo.org/badge/26588915.svg)](https://zenodo.org/badge/latestdoi/26588915)
 [![Binder](https://mybinder.org/badge.svg)](https://mybinder.org/v2/gh/pygae/clifford/master?filepath=examples%2Fg3c.ipynb) 
 [![Documentation Status](https://readthedocs.org/projects/clifford/badge/?version=latest)](http://clifford.readthedocs.io/en/latest/?badge=latest)
-[![Build Status](https://travis-ci.org/pygae/clifford.svg?branch=master)](https://travis-ci.org/pygae/clifford)
+[![Build Status](https://github.com/pygae/clifford/actions/workflows/python-package.yml/badge.svg?branch=master)](https://github.com/pygae/clifford/actions/workflows/python-package.yml)
 [![Build Status](https://dev.azure.com/hadfieldhugo/clifford/_apis/build/status/pygae.clifford?branchName=master)](https://dev.azure.com/hadfieldhugo/clifford/_build/latest?definitionId=1&branchName=master)
 [![codecov](https://codecov.io/gh/pygae/clifford/branch/master/graph/badge.svg)](https://codecov.io/gh/pygae/clifford)
 

diff --git a/travis_install_conda.sh b/travis_install_conda.sh