DIG-1144: Update to Python 3.12

[daisieh]

While I'm updating packages, these should be updated as well. You can install and test locally by:

cd clinical_ETL_code
pip install build
python -m build
pip install -e .
pytest

[mshadbolt]

Seems to be a problem with the tests for me:

========================================================================= test session starts ==========================================================================
platform darwin -- Python 3.11.5, pytest-7.4.0, pluggy-1.0.0
rootdir: /Users/marionshadbolt/Documents/GitHub/clinical_ETL_code
plugins: anyio-3.5.0
collected 0 items / 1 error                                                                                                                                            

================================================================================ ERRORS ================================================================================
______________________________________________________________ ERROR collecting tests/test_data_ingest.py ______________________________________________________________
ImportError while importing test module '/Users/marionshadbolt/Documents/GitHub/clinical_ETL_code/tests/test_data_ingest.py'.
Hint: make sure your test modules/packages have valid Python names.
Traceback:
/opt/homebrew/anaconda3/lib/python3.11/importlib/__init__.py:126: in import_module
    return _bootstrap._gcd_import(name[level:], package, level)
tests/test_data_ingest.py:3: in <module>
    from clinical_etl import CSVConvert
E   ModuleNotFoundError: No module named 'clinical_etl'
======================================================================= short test summary info ========================================================================
ERROR tests/test_data_ingest.py
!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!! Interrupted: 1 error during collection !!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
=========================================================================== 1 error in 0.15s ===========================================================================
(venv) marionshadbolt@Marions-Air clinical_ETL_code % ls
LICENSE                 _local                  mapping_functions.md    pyproject.toml          sample_inputs           tests                   venv
README.md               dist                    moh_template.csv        requirements.txt        src                     update_moh_template.sh
(venv) marionshadbolt@Marions-Air clinical_ETL_code % python --version
Python 3.12.1

[mshadbolt]

actually looking at this error message maybe there is something weird going on with my conda, not sure if it is using 3.11 or 3.12

[mshadbolt]

ok running with the right python version:

(venv) marionshadbolt@Marions-Air clinical_ETL_code % python3.12 -m pytest
========================================================================= test session starts ==========================================================================
platform darwin -- Python 3.12.1, pytest-7.4.3, pluggy-1.3.0
rootdir: /Users/marionshadbolt/Documents/GitHub/clinical_ETL_code
collected 6 items                                                                                                                                                      

tests/test_data_ingest.py ......                                                                                                                                 [100%]

=========================================================================== warnings summary ===========================================================================
venv/lib/python3.12/site-packages/dateutil/tz/tz.py:37
  /Users/marionshadbolt/Documents/GitHub/clinical_ETL_code/venv/lib/python3.12/site-packages/dateutil/tz/tz.py:37: DeprecationWarning: datetime.datetime.utcfromtimestamp() is deprecated and scheduled for removal in a future version. Use timezone-aware objects to represent datetimes in UTC: datetime.datetime.fromtimestamp(timestamp, datetime.UTC).
    EPOCH = datetime.datetime.utcfromtimestamp(0)

-- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html
==================================================================== 6 passed, 1 warning in 13.44s =====================================================================

Should we update the datetime.datetime now to avoid having to do it when it gets deprecated