Migrate to GitHub Actions

Author: csachs

.github/workflows/docker.yml

@@ -0,0 +1,50 @@
+name: Docker image
+
+on:   
+  push:
+    # Publish `main` as Docker `latest` image.
+    branches:
+      - main
+
+    # Publish `v1.2.3` tags as releases.
+    tags:
+      - v*
+
+  pull_request:
+
+env:
+  IMAGE_NAME: cellsium
+
+jobs:
+  # See also https://docs.docker.com/docker-hub/builds/
+  push:
+    runs-on: ubuntu-latest
+    permissions:
+      packages: write
+      contents: read
+
+    steps:
+      - uses: actions/checkout@v2
+
+      - name: Build image
+        run: docker build . --file Dockerfile --tag $IMAGE_NAME --label "runnumber=${GITHUB_RUN_ID}"
+
+      - name: Log in to registry
+        run: echo "${{ secrets.GITHUB_TOKEN }}" | docker login ghcr.io -u ${{ github.actor }} --password-stdin
+
+      - name: Push image
+        run: |
+          IMAGE_ID=ghcr.io/${{ github.repository_owner }}/$IMAGE_NAME
+
+          # Change all uppercase to lowercase
+          IMAGE_ID=$(echo $IMAGE_ID | tr '[A-Z]' '[a-z]')
+          # Strip git ref prefix from version
+          VERSION=$(echo "${{ github.ref }}" | sed -e 's,.*/\(.*\),\1,')
+          # Strip "v" prefix from tag name
+          [[ "${{ github.ref }}" == "refs/tags/"* ]] && VERSION=$(echo $VERSION | sed -e 's/^v//')
+          # Use Docker `latest` tag convention
+          [ "$VERSION" == "main" ] && VERSION=latest
+          echo IMAGE_ID=$IMAGE_ID
+          echo VERSION=$VERSION
+          docker tag $IMAGE_NAME $IMAGE_ID:$VERSION
+          docker push $IMAGE_ID:$VERSION

.github/workflows/python-package.yml

@@ -0,0 +1,25 @@
+name: Python package
+
+on: [push]
+
+jobs:
+  build:
+    runs-on: ubuntu-latest
+    strategy:
+      matrix:
+        python-versions: [3.8]
+    
+    steps:
+      - uses: actions/checkout@v2
+      - uses: actions/setup-python@v2
+        with:
+          python-version: ${{ matrix.python-version }}
+      - name: Install dependencies
+        run: |
+          python -m pip install --upgrade pip wheel build
+      - name: Building packages
+        run: python -m build
+      - uses: actions/upload-artifact@v2
+        with:
+          name: cellsium-package
+          path: dist/*

.github/workflows/python-test.yml

@@ -0,0 +1,29 @@
+name: Python tests
+
+on: [push]
+
+jobs:
+  build:
+    runs-on: ubuntu-latest
+    strategy:
+      matrix:
+        python-versions: [3.8]
+    
+    steps:
+      - uses: actions/checkout@v2
+      - uses: actions/setup-python@v2
+        with:
+          python-version: ${{ matrix.python-version }}
+      - name: Install dependencies
+        run: |
+          python -m pip install --upgrade pip wheel
+          pip install ".[check,test,doc]"
+      - name: Syntax check with black
+        run: black --check cellsium
+      - name: Syntax check with isort
+        run: isort --check cellsium
+      - name: Syntax check with pflake8
+        run: pflake8 cellsium
+      - name: unittests with pytest
+        run: pytest
+      - uses: codecov/codecov-action@v2

.travis.yml

@@ -9,14 +9,14 @@ CellSium Readme
 .. image:: https://img.shields.io/badge/docs-latest-brightgreen.svg?style=flat
    :target: https://cellsium.readthedocs.io/en/latest/
 
-.. image:: https://api.travis-ci.com/modsim/CellSium.svg?branch=main
-   :target: https://app.travis-ci.com/github/modsim/CellSium
+.. image:: https://github.com/modsim/CellSium/actions/workflows/python-test.yml/badge.svg
+   :target: https://github.com/modsim/CellSium/actions/workflows/python-test.yml
 
 .. image:: https://codecov.io/gh/modsim/CellSium/branch/main/graph/badge.svg?token=L36RQXYBW7
     :target: https://codecov.io/gh/modsim/CellSium
 
-.. image:: https://img.shields.io/docker/build/modsim/cellsium.svg
-   :target: https://hub.docker.com/r/modsim/cellsium
+.. image:: https://img.shields.io/badge/Docker-image-green?logo=docker
+   :target: https://github.com/modsim/CellSium/pkgs/container/cellsium
 
 .. image:: https://img.shields.io/pypi/l/cellsium.svg
    :target: https://opensource.org/licenses/BSD-2-Clause
@@ -118,10 +118,10 @@ An alternative to installing CellSium locally is running it via Docker. To run C
 
 .. code-block:: bash
 
-    > docker run --tty --interactive --rm --volume `pwd`:/data --user `id -u` cellsium
+    > docker run --tty --interactive --rm --volume `pwd`:/data --user `id -u` ghcr.io/modsim/cellsium
 
 To use interactive (GUI) elements such as the :code:`PlotRenderer`, an X server must be reachable; under Linux the following command can be used:
 
 .. code-block:: bash
 
-    > docker run --tty --interactive --rm --volume `pwd`:/data --user `id -u` --env DISPLAY=$DISPLAY --volume /tmp/.X11-unix:/tmp/.X11-unix cellsium
+    > docker run --tty --interactive --rm --volume `pwd`:/data --user `id -u` --env DISPLAY=$DISPLAY --volume /tmp/.X11-unix:/tmp/.X11-unix ghcr.io/modsim/cellsium

README.rst

@@ -57,7 +57,7 @@ multi_line_output = 3
 
 [tool.pytest.ini_options]
 minversion = "6.0"
-addopts = "--cov=cellsium -vv --durations=0"
+addopts = "--cov=cellsium --cov-report=xml -vv --durations=0"
 
 [tool.flake8]
 max-line-length = 88