Add "examples" variant for pip installation including dependencies ne…

…eded for examples, mention in README, and use in .binder/requirements.txt file. Closes #305 (#402)

.github/workflows/tests+pypi.yml

@@ -202,10 +202,13 @@ jobs:
           python -m pytest --durations=10 -v -s -We -p no:unraisableexception .
           cd ..
 
+      - env:
+          SYSTEM_VERSION_COMPAT: 0 
+        run: |
+          for i in dist/*.whl; do python -m pip install $PIP_INSTALL_OPTS $i[examples]; done;
+
       - run: |
           python -m pip install $PIP_INSTALL_OPTS -r gitmodules/devops_tests/requirements.txt
-          ex -sc 'g/^PyPartMC/d' -cx .binder/requirements.txt
-          python -m pip install $PIP_INSTALL_OPTS -r .binder/requirements.txt
           GITHUB_TOKEN=${{ secrets.GITHUB_TOKEN }} python -m pytest --durations=10 -v -s -We -p no:unraisableexception gitmodules/devops_tests
 
 ## uncomment to gain ssh access in case of failure

CONTRIBUTING.md

@@ -61,7 +61,7 @@ flowchart TD
 ```sh
 git clone --recursive git+https://github.com/open-atmos/PyPartMC.git
 cd PyPartMC
-DEBUG=1 VERBOSE=1 pip --verbose install -e .
+DEBUG=1 VERBOSE=1 pip --verbose install -e .[tests]
 gdb python 
 (gdb) run -m pytest -s -vv -We -p no:unraisableexception tests
 ```

README.md

@@ -59,6 +59,11 @@ import PyPartMC
 #### Jupyter notebooks with examples 
 Note: clicking the badges below redirects to cloud-computing platforms. The mybinder.org links allow anonymous execution, Google Colab requires logging in with a Google account, ARM JupyerHub requires logging in with an ARM account (and directing Jupyter to a particular notebook within the `examples` folder).
 
+The example notebooks feature additional dependencies that can be installed with:
+```bash
+pip install PyPartMC[examples]
+```
+
 - Urban plume scenario demo (as in [PartMC](https://github.com/compdyn/partmc/tree/master/scenarios/1_urban_plume)):    
 [![View notebook](https://img.shields.io/static/v1?label=render%20on&logo=github&color=87ce3e&message=GitHub)](https://github.com/open-atmos/PyPartMC/blob/main/examples/particle_simulation.ipynb) 
 [![Open In Colab](https://colab.research.google.com/assets/colab-badge.svg)](https://colab.research.google.com/github/open-atmos/PyPartMC/blob/main/examples/particle_simulation.ipynb) 

setup.py

@@ -153,6 +153,15 @@ def build_extension(self, ext):  # pylint: disable=too-many-branches
             "fastcore!=1.5.8",  # https://github.com/fastai/fastcore/issues/439
             "ghapi",
             "scipy",
-        ]
+        ],
+        "examples": [
+            "matplotlib!=3.10.0",
+            "ipywidgets",
+            "voila",
+            "open-atmos-jupyter-utils",
+            "PySDM",
+            "PyMieScatt@git+https://github.com/bsumlin/PyMieScatt.git",
+            "SciPy",
+        ],
     },
 )