New Pystan Environment that works on M1 Mac

pystan_env.sh

conda create -n stan --yes
conda activate stan
conda install pip --yes

# Install httpstan from source (this will take a while).
pip install -v git+https://github.com/tillahoffmann/httpstan@pip
# Install pystan.
pip install 'pystan>=3'
# Try a dummy program (this should report build and sampling progress).
python -c 'import stan; stan.build("parameters { real x; } model { x ~ normal(0, 1); }").sample()'

conda install -c conda-forge ipython arviz scikit-learn seaborn jupyterlab nest-asyncio --yes

# test https://pystan.readthedocs.io/en/latest/

# issue when running code inside a jupyter notebook
https://stackoverflow.com/questions/55409641/asyncio-run-cannot-be-called-from-a-running-event-loop

---------------------------------------------------------------------------
RuntimeError                              Traceback (most recent call last)
/var/folders/q3/0lmt64ld10s14_0n0vxpt_m00000gp/T/ipykernel_28231/803591416.py in <module>
----> 1 posterior = stan.build(model_code, data=data)

~/miniconda3/envs/stan/lib/python3.9/site-packages/stan/model.py in build(program_code, data, random_seed)
    515 
    516     try:
--> 517         return asyncio.run(go())
    518     except KeyboardInterrupt:
    519         return  # type: ignore

~/miniconda3/envs/stan/lib/python3.9/asyncio/runners.py in run(main, debug)
     31     """
     32     if events._get_running_loop() is not None:
---> 33         raise RuntimeError(
     34             "asyncio.run() cannot be called from a running event loop")
     35 

RuntimeError: asyncio.run() cannot be called from a running event loop
​

From the Pystan FAQs

# How can I use PyStan with Jupyter Notebook or JupyterLab?
Use nest-asyncio. This package is needed because Jupter Notebook blocks the use of certain asyncio functions. (To verify this, try running asyncio.run(asyncio.sleep(1)) in a notebook.) If you would like to learn more about the problem, see the following issue: ipython/ipykernel#548. This problem only affects Jupyter Notebook and derivatives. It does not affect IPython.

Add the following lines to the opening of jupyter notebook github page for nest_asyncio:

import nest_asyncio
nest_asyncio.apply()

Initialisation Errors are caused by data not meeting the constraints: here

---------------------------------------------------------------------------
RemoteTraceback                           Traceback (most recent call last)
RemoteTraceback: 
"""
Traceback (most recent call last):
  File "/home/thomas_lees112/miniconda3/envs/stan/lib/python3.7/multiprocessing/pool.py", line 121, in worker
    result = (True, func(*args, **kwds))
  File "/home/thomas_lees112/miniconda3/envs/stan/lib/python3.7/multiprocessing/pool.py", line 44, in mapstar
    return list(map(*args))
  File "stanfit4anon_model_4f4910bcf40488584c481cb91fedfe57_36726699539089669.pyx", line 371, in stanfit4anon_model_4f4910bcf40488584c481cb91fedfe57_36726699539089669._call_sampler_star
  File "stanfit4anon_model_4f4910bcf40488584c481cb91fedfe57_36726699539089669.pyx", line 404, in stanfit4anon_model_4f4910bcf40488584c481cb91fedfe57_36726699539089669._call_sampler
RuntimeError: Initialization failed.
"""

But there is a problem with empty int lists: Github Issue here

This was discussed Discourse here