install NEST in Github Actions (#753)

NeuralEnsemble · Apr 20, 2022 · 5bf3823 · 5bf3823
1 parent 8fefeda
commit 5bf3823
Showing 1 changed file with 19 additions and 4 deletions.
diff --git a/.github/workflows/full-test.yml b/.github/workflows/full-test.yml
@@ -14,7 +14,7 @@ jobs:
     name: Test on ${{ matrix.os }} with Python ${{ matrix.python-version }}
     runs-on: ${{ matrix.os }}
     strategy:
-      fail-fast: false
+      fail-fast: true
       matrix:
         python-version: ["3.8", "3.9"]
         os: ["ubuntu-latest", "windows-latest"]
@@ -24,10 +24,15 @@ jobs:
       uses: actions/setup-python@v2
       with:
         python-version: ${{ matrix.python-version }}
-    - name: Install basic dependencies
+    - name: Install Linux system dependencies
+      if: startsWith(matrix.os, 'ubuntu')
+      run: |
+        sudo apt-get install libltdl-dev libgsl0-dev python3-all-dev openmpi-bin libopenmpi-dev
+    - name: Install basic Python dependencies
       run: |
         python -m pip install --upgrade pip
         python -m pip install coverage coveralls nose-testconfig
+        python -m pip install mpi4py
         python -m pip install -r requirements.txt
     - name: Install Brian 2
       run: |
@@ -36,12 +41,22 @@ jobs:
       if: startsWith(matrix.os, 'ubuntu')
       run: |
         python -m pip install neuron
+        python -m pip install nrnutils
+    - name: Install NEST
+      if: startsWith(matrix.os, 'ubuntu')
+      run: |
+        python -m pip install cython
+        wget https://github.com/nest/nest-simulator/archive/refs/tags/v3.3.tar.gz -O nest-simulator-3.3.tar.gz
+        tar xzf nest-simulator-3.3.tar.gz
+        cmake -DCMAKE_INSTALL_PREFIX=$HOME/.local -Dwith-mpi=ON ./nest-simulator-3.3
+        make
+        make install
     - name: Install PyNN itself
       run: |
         python setup.py install
     - name: Run unit tests
       run: |
-        nosetests --nologcapture --where=test/unittests --verbosity=3 test_assembly.py test_brian.py test_connectors_parallel.py test_connectors_serial.py test_core.py test_descriptions.py test_files.py test_idmixin.py test_lowlevelapi.py test_neuron.py test_parameters.py test_population.py test_populationview.py test_projection.py test_random.py test_recording.py test_simulation_control.py test_space.py test_standardmodels.py test_utility_functions.py
+        nosetests --nologcapture --where=test/unittests --verbosity=2 test_assembly.py test_brian.py test_connectors_parallel.py test_connectors_serial.py test_core.py test_descriptions.py test_files.py test_idmixin.py test_lowlevelapi.py test_nest.py test_neuron.py test_parameters.py test_population.py test_populationview.py test_projection.py test_random.py test_recording.py test_simulation_control.py test_space.py test_standardmodels.py test_utility_functions.py
     - name: Run system tests
       run: |
-        nosetests --nologcapture --where=test/system test_brian2.py test_neuron.py
+        nosetests --nologcapture --where=test/system --verbosity=2 test_nest.py test_brian2.py test_neuron.py