Configuring pyrealm

[davidorme]

Description

This PR:

• Adds a new pyrealm section to the core configuration that provides instances of pyrealm's PModelConst and CoreConst. These can be configured using the TOML - there is a residual issue that numpy arrays in the pyrealm config cannot currently be serialised, so user configuration of pyrealm is not captured in exported config TOMLs.
• Updates all of the models that use pyrealm constants classes to use that configuration section and pass those configured constants instances down through models to the functions and methods that require them.
• Adds a new fixture_pyrealm_config fixture to tests/conftest.py and uses that in all tests that previously used standalone imports of pyrealm constants.

Fixes #1140
Also fixes #697 - which was PlantsModel specific

Type of change

• New feature (non-breaking change which adds functionality)
• Optimization (back-end change that speeds up the code)
• Bug fix (non-breaking change which fixes an issue)

Key checklist

• Make sure you've run the pre-commit checks: $ pre-commit run -a
• All tests pass: $ poetry run pytest

Further checks

• Code is commented, particularly in hard-to-understand areas
• Tests added that prove fix is effective or that feature works
• Relevant documentation reviewed and updated

[codecov-commenter]

Codecov Report

✅ All modified and coverable lines are covered by tests.
✅ Project coverage is 94.34%. Comparing base (02c73ce) to head (da1fe5d).

Additional details and impacted files

@@             Coverage Diff             @@
##           develop    #1141      +/-   ##
===========================================
+ Coverage    94.33%   94.34%   +0.01%     
===========================================
  Files           70       70              
  Lines         7024     7044      +20     
===========================================
+ Hits          6626     6646      +20     
  Misses         398      398              

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