Add pynestml to CI and local test environments

Author: apdavison

.github/workflows/full-test.yml

@@ -56,7 +56,7 @@ jobs:
         python -m pip install arbor==0.9.0 libNeuroML
     - name: Install PyNN itself
       run: |
-        python -m pip install -e ".[test]"
+        python -m pip install -e ".[test,nestml]"
     - name: Test installation has worked (Ubuntu)
       # this is needed because the PyNN tests are just skipped if the simulator
       # fails to install, so we need to catch import failures separately

.gitignore

@@ -93,3 +93,18 @@ tmp
 doc/logos
 docker_*.eggs/
 /test/system/tmp_serialization_test
+
+# Test coverage output
+coverage.lcov
+coverage.xml
+
+# Compiled shared libraries (NEURON, Arbor, NESTML)
+*.so
+pyNN/neuron/nmodl/*/
+
+# Simulation output and NESTML compilation targets
+**/Results/
+**/target/
+
+# Scratch directories
+tmp_*/

pyproject.toml

@@ -45,6 +45,7 @@ brian2 = ["brian2"]
 arbor = ["arbor==0.9.0", "libNeuroML"]
 spiNNaker = ["spyNNaker"]
 neuroml = ["libNeuroML"]
+nestml = ["pynestml"]
 
 [project.urls]
 homepage = "http://neuralensemble.org/PyNN/"

test/Dockerfile

@@ -51,7 +51,7 @@ COPY pyproject.toml /tmp/pynn-meta/
 RUN mkdir -p /tmp/pynn-meta/pyNN && touch /tmp/pynn-meta/pyNN/__init__.py && \
     pip install --no-cache-dir \
         "numpy<2" \
-        "/tmp/pynn-meta[test,neuron,brian2,arbor,MPI,sonata,neuroml]" && \
+        "/tmp/pynn-meta[test,neuron,brian2,arbor,MPI,sonata,neuroml,nestml]" && \
     rm -rf /tmp/pynn-meta
 
 COPY test/docker-entrypoint.sh /entrypoint.sh

test/environment-nest3.9.yml

@@ -36,6 +36,7 @@ dependencies:
     - morphio
     - neuron
     - nrnutils
+    - pynestml
     - Cheetah3
     - Jinja2
     - pytest