Add Docker image for CI #136

.github/workflows/build-docker.yml

@@ -0,0 +1,31 @@
+name: Build and push CI Docker image
+
+on:
+  push:
+    branches:
+      - develop
+    paths:
+      - "Dockerfile"
+      - "pyproject.toml"
+  workflow_dispatch:
+
+jobs:
+  build-and-push:
+    name: Build and push Docker image
+    runs-on: ubuntu-latest
+    steps:
+      - name: Checkout repository
+        uses: actions/checkout@v4
+
+      - name: Log in to DockerHub
+        uses: docker/login-action@v3
+        with:
+          username: ${{ secrets.DOCKERHUB_USERNAME }}
+          password: ${{ secrets.DOCKERHUB_TOKEN }}
+
+      - name: Build and push Docker image
+        uses: docker/build-push-action@v5
+        with:
+          context: .
+          push: true
+          tags: precice/micro-manager-ci:latest

.github/workflows/run-adaptivity-parallel.yml

@@ -0,0 +1,75 @@
+name: Test adaptivity functionality in parallel
+on:
+  push:
+    branches:
+      - main
+      - develop
+  pull_request:
+    branches:
+      - "*"
+jobs:
+  integration_tests:
+    name: Integration tests
+    runs-on: ubuntu-latest
+    container: precice/micro-manager-ci:latest
+    steps:
+      - name: Checkout repository
+        uses: actions/checkout@v4
+        with:
+          path: micro-manager
+
+      - name: Create a virtual environment and install Micro Manager in it
+        working-directory: micro-manager
+        run: |
+          python3 -m venv .venv
+          . .venv/bin/activate
+          pip install .
+
+      - name: Run integration test with global adaptivity in parallel
+        timeout-minutes: 3
+        working-directory: micro-manager
+        run: |
+          . .venv/bin/activate
+          cd tests/integration/test_unit_cube/
+          mpiexec -n 2 --allow-run-as-root micro-manager-precice micro-manager-config-global-adaptivity-parallel.json &
+          python3 unit_cube.py 2
+
+  unit_tests:
+    name: Unit tests
+    runs-on: ubuntu-latest
+    container: precice/micro-manager-ci:latest
+    steps:
+      - name: Checkout Repository
+        uses: actions/checkout@v4
+        with:
+          path: micro-manager
+
+      - name: Create a virtual environment and install Micro Manager in it
+        working-directory: micro-manager
+        run: |
+          python3 -m venv .venv
+          . .venv/bin/activate
+          pip install .
+
+      - name: Run unit tests
+        working-directory: micro-manager
+        run: |
+          . .venv/bin/activate
+          cd tests/unit
+          mpiexec -n 2 --allow-run-as-root python3 -m unittest test_adaptivity_parallel.py
+
+      - name: Run load balancing unit tests with 2 ranks
+        timeout-minutes: 3
+        working-directory: micro-manager
+        run: |
+          . .venv/bin/activate
+          cd tests/unit
+          mpiexec -n 2 --allow-run-as-root python3 -m unittest test_global_adaptivity_lb.py
+
+      - name: Run load balancing tests with 4 ranks
+        timeout-minutes: 3
+        working-directory: micro-manager
+        run: |
+          . .venv/bin/activate
+          cd tests/unit
+          mpiexec -n 4 --allow-run-as-root --oversubscribe python3 -m unittest test_global_adaptivity_lb.py

.github/workflows/run-adaptivity-serial.yml

@@ -0,0 +1,51 @@
+name: Test adaptivity functionality in serial
+on:
+  push:
+    branches:
+      - main
+      - develop
+  pull_request:
+    branches:
+      - "*"
+jobs:
+  unit_and_integration_tests:
+    name: Unit and integration tests
+    runs-on: ubuntu-latest
+    container: precice/micro-manager-ci:latest
+    steps:
+      - name: Checkout repository
+        uses: actions/checkout@v4
+        with:
+          path: micro-manager
+
+      - name: Create a virtual environment and install the Micro Manager in it
+        working-directory: micro-manager
+        run: |
+          python3 -m venv .venv
+          . .venv/bin/activate
+          pip install .
+
+      - name: Run integration test with local adaptivity
+        timeout-minutes: 3
+        working-directory: micro-manager
+        run: |
+          . .venv/bin/activate
+          cd tests/integration/test_unit_cube
+          micro-manager-precice micro-manager-config-local-adaptivity.json &
+          python3 unit_cube.py 2
+
+      - name: Run integration test with global adaptivity
+        timeout-minutes: 3
+        working-directory: micro-manager
+        run: |
+          . .venv/bin/activate
+          cd tests/integration/test_unit_cube
+          micro-manager-precice micro-manager-config-global-adaptivity.json &
+          python3 unit_cube.py 2
+
+      - name: Run adaptivity unit tests in serial
+        working-directory: micro-manager
+        run: |
+          . .venv/bin/activate
+          cd tests/unit
+          python3 -m unittest test_adaptivity_serial.py

.github/workflows/run-domain-decomposition-tests.yml

@@ -11,19 +11,13 @@ jobs:
   unit_tests:
     name: Run domain decomposition unit tests
     runs-on: ubuntu-latest
-    container: precice/precice:nightly
+    container: precice/micro-manager-ci:latest
     steps:
       - name: Checkout Repository
-        uses: actions/checkout@v6
+        uses: actions/checkout@v4
         with:
           path: micro-manager
 
-      - name: Install Dependencies
-        working-directory: micro-manager
-        run: |
-          apt-get -qq update
-          apt-get -qq install python3-dev python3-venv git pkg-config
-
       - name: Create a virtual environment and install the Micro Manager in it
         working-directory: micro-manager
         run: |

.github/workflows/run-dummy.yml

@@ -0,0 +1,70 @@
+name: Run Python and C++ dummy
+on:
+  push:
+    branches:
+      - main
+      - develop
+  pull_request:
+    branches:
+      - "*"
+jobs:
+  run_dummy:
+    name: Run dummy
+    runs-on: ubuntu-latest
+    container: precice/micro-manager-ci:latest
+    steps:
+      - name: Checkout Repository
+        uses: actions/checkout@v4
+        with:
+          path: micro-manager
+
+      - name: Create a virtual environment and install Micro Manager in it
+        timeout-minutes: 6
+        working-directory: micro-manager
+        run: |
+          python3 -m venv .venv
+          . .venv/bin/activate
+          pip install .
+
+      - name: Run python dummy
+        timeout-minutes: 3
+        working-directory: micro-manager
+        run: |
+          . .venv/bin/activate
+          cd examples/
+          micro-manager-precice micro-manager-python-config.json &
+          python3 macro_dummy.py no_adaptivity
+          ./clean-example.sh
+
+      - name: Run python dummy with adaptivity
+        timeout-minutes: 3
+        working-directory: micro-manager
+        run: |
+          . .venv/bin/activate
+          cd examples/
+          micro-manager-precice micro-manager-python-adaptivity-config.json &
+          python3 macro_dummy.py adaptivity
+          ./clean-example.sh
+
+      - name: Run C++ dummy
+        timeout-minutes: 3
+        working-directory: micro-manager
+        run: |
+          . .venv/bin/activate
+          cd examples/cpp-dummy/
+          pip install pybind11
+          c++ -O3 -Wall -shared -std=c++11 -fPIC $(python3 -m pybind11 --includes) micro_cpp_dummy.cpp -o micro_dummy$(python3-config --extension-suffix)
+          cd ../
+          micro-manager-precice micro-manager-cpp-config.json &
+          python3 macro_dummy.py no_adaptivity
+          ./clean-example.sh
+
+      - name: Run adaptive C++ dummy
+        timeout-minutes: 3
+        working-directory: micro-manager
+        run: |
+          . .venv/bin/activate
+          cd examples/
+          micro-manager-precice micro-manager-cpp-adaptivity-config.json &
+          python3 macro_dummy.py adaptivity
+          ./clean-example.sh

.github/workflows/run-unit-tests.yml

@@ -10,50 +10,12 @@ on:
 jobs:
   unit_tests:
     runs-on: ubuntu-latest
-    container: precice/precice:nightly
+    container: precice/micro-manager-ci:latest
     steps:
-      - uses: actions/checkout@v6
+      - uses: actions/checkout@v4
         with:
           path: micro-manager
 
-      - name: Install dependencies
-        run: |
-          apt-get -qq update
-          apt-get -qq install python3-dev python3-venv git pkg-config
-          apt-get -qq install wget build-essential
-
-      - name: Load Cache OpenMPI 5
-        id: ompi-cache-load
-        uses: actions/cache/restore@v5
-        with:
-          path: ~/openmpi
-          key: openmpi-v5-${{ runner.os }}-build
-
-      - name: Build OpenMPI 5
-        if: steps.ompi-cache-load.outputs.cache-hit != 'true'
-        run: |
-          wget https://download.open-mpi.org/release/open-mpi/v5.0/openmpi-5.0.5.tar.gz
-          tar -xzf openmpi-5.0.5.tar.gz
-          cd openmpi-5.0.5
-          mkdir -p ~/openmpi
-          ./configure --prefix=$HOME/openmpi
-          make -j$(nproc)
-          make install
-
-      - name: Save OpenMPI 5 to cache
-        if: steps.ompi-cache.outputs.cache-hit != 'true'
-        id: ompi-cache-store
-        uses: actions/cache/save@v5
-        with:
-          path: ~/openmpi
-          key: openmpi-v5-${{ runner.os }}-build
-
-      - name: Configure OpenMPI
-        run: |
-          cp -r ~/openmpi/* /usr/local/
-          ldconfig
-          which mpiexec
-          mpiexec --version
 
       - name: Create a virtual environment and install Micro Manager in it
         timeout-minutes: 6

Dockerfile

@@ -0,0 +1,16 @@
+FROM precice/precice:nightly
+
+RUN apt-get -qq update && apt-get -qq install -y \
+    sudo \
+    python3-dev \
+    python3-venv \
+    git \
+    pkg-config \
+    pybind11-dev \
+    libopenmpi-dev \
+    openmpi-bin \
+    && rm -rf /var/lib/apt/lists/*
+
+RUN pip install mpi4py
+
+WORKDIR /micro-manager