Migrate to pydantic version 2

[stephen-riggs]

This implements the changes needed for pydantic 2.

In doing this, we also upgrade to sqlalchemy 2, so one change has also been made for that.

Also this removes the procrunner dependency in favour of directly calling subprocess.

Before merging this we need to be able to run MSYS2 or a similar rust-compatible terminal on the microscopes.

Closes #315

[codecov]

Codecov Report

Attention: Patch coverage is 54.34783% with 42 lines in your changes missing coverage. Please review.

Project coverage is 31.86%. Comparing base (060a5da) to head (1e73985).
Report is 1 commits behind head on main.

Additional details and impacted files

@@           Coverage Diff           @@
##             main     #372   +/-   ##
=======================================
  Coverage   31.85%   31.86%           
=======================================
  Files          90       90           
  Lines       10726    10762   +36     
  Branches     1416     1422    +6     
=======================================
+ Hits         3417     3429   +12     
- Misses       7193     7215   +22     
- Partials      116      118    +2     

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[tieneupin]

Looks good!

[tieneupin]

Made corrections to a few missed spots, and it seems to be working now.