Added compatibility with MDAnalysis 2.4 (#36)

* Update propkatraj to be compatible with with MDAnalysis 2.x
- Removed the `get_propka` function (next version must be 2.0.0)
- PropkaTraj constructor accepts atom indices for selections
- Pandas Index with a dtype of float64 instead of Float64Index,
  per deprecation warning from Pandas
- Removed removed tests for `get_propka` and changed the baseanalysis
  test names to be being the standard
- Expanded parameters for `test_single_frame_regression`
- Removed MDAnalysis version constraint in setup.py
- Update dev environment requirements
* Added GitHub actions workflow
* Including pylintrc from MDAKit cookiecutter
* Added py311 to tested versions

.github/workflows/gh-ci.yaml

@@ -0,0 +1,141 @@
+name: GH Actions CI
+on:
+  push:
+    branches:
+      - master
+      - dev
+  pull_request:
+    branches:
+      - master
+      - dev
+  schedule:
+    - cron: "0 0 * * 0"
+
+concurrency:
+  group: ${{ github.ref }}-${{ github.head_ref }}-${{ github.workflow }}
+  cancel-in-progress: true
+
+defaults:
+  run:
+    shell: bash -l {0}
+
+jobs:
+  environment-config:
+    runs-on: ubuntu-latest
+    outputs:
+      stable-python-version: ${{ steps.get_python_version.outputs.python-version }}
+    steps:
+      - uses: actions/checkout@v3
+
+      - id: get-python-version
+        uses: MDAnalysis/get-latest-python-version@main
+        with:
+          last-n-minor-release: 1
+
+  main-tests:
+    if: "github.repository == 'Becksteinlab/propkatraj'"
+    runs-on: ${{ matrix.os }}
+    strategy:
+      fail-fast: false
+      matrix:
+        os: [macOS-latest, ubuntu-latest, windows-latest]
+        python-version: ["3.8", "3.9", "3.10", "3.11"]
+        mdanalysis-version: ["latest", "develop"]
+
+    steps:
+    - uses: actions/checkout@v3
+    - name: Build information
+      run: |
+        uname -a
+        df -h
+        ulimit -a
+
+    - name: Install conda dependencies
+      uses: conda-incubator/setup-miniconda@v2
+      with:
+        python-version: ${{ matrix.python-version }}
+        environment-file: devtools/environment.yml
+        add-pip-as-python-dependency: true
+        architecture: x64
+
+        miniforge-variant: Mambaforge
+        use-mamba: true
+        channels: conda-forge, defaults
+
+        activate-environment: propkatraj-test
+        auto-update-conda: true
+        auto-activate-base: false
+        show-channel-urls: true
+
+    - name: Install MDAnalysis version
+      uses: MDAnalysis/install-mdanalysis@main
+      with:
+        version: ${{ matrix.mdanalysis-version }}
+        install-tests: true
+        installer:  mamba
+        shell: bash -l {0} 
+
+    - name: Install package
+      run: |
+        python --version
+        python -m pip install .  --no-deps 
+    - name: Python information
+      run: |
+        which python
+        which pip
+        pip list
+        conda info
+        conda list
+    - name: Run tests
+      run: |
+        pytest -v --color=yes propkatraj/tests/
+
+  pylint_check:
+    if: "github.repository == 'Becksteinlab/propkatraj'"
+    needs: environment-config
+    runs-on: ubuntu-latest
+
+    steps:
+    - uses: actions/checkout@v3
+
+    - name: Set up Python
+      uses: actions/setup-python@v4
+      with:
+        python-version: ${{ needs.environment-config.outputs.stable-python-version }}
+
+    - name: Install Pylint
+      run: |
+        which pip
+        which python
+        pip install pylint MDAnalysis>=2.0.0
+    - name: Run Pylint
+      env:
+        PYLINTRC: .pylintrc
+      run: |
+        pylint propkatraj
+
+  pypi_check:
+    if: "github.repository == 'Becksteinlab/propkatraj'"
+    needs: environment-config
+    runs-on: ubuntu-latest
+
+    steps:
+    - uses: actions/checkout@v3
+
+    - name: Set up Python ${{ needs.environment-config.outputs.stable-python-version }}
+      uses: actions/setup-python@v4
+      with:
+        python-version: ${{ needs.environment-config.outputs.stable-python-version }}
+
+    - name: Install dependencies
+      run: |
+        pip install setuptools cython numpy twine
+    - name: Build package
+      run: |
+        python setup.py sdist
+    - name: Check package build
+      run: |
+        DISTRIBUTION=$(ls -t1 dist/propkatraj-*.tar.gz | head -n 1)
+        test -n "${DISTRIBUTION}" || { echo "no distribution dist/propkatraj-*.tar.gz found"; exit 1; }
+        echo "twine check $DISTRIBUTION"
+        twine check $DISTRIBUTION