Migrate to NumPy 2.0

[tasansal]

We now require NumPy 2.0 since it has many improvements.

• Implementation
• Update tests

Closes #220

In addition:

• Updated dev dependencies to latest
• Updated I/O and schema dependencies to latest

[codecov]

Codecov Report

All modified and coverable lines are covered by tests ✅

Project coverage is 95.20%. Comparing base (b5885c9) to head (bca3c62).

Additional details and impacted files

@@            Coverage Diff             @@
##             main     #225      +/-   ##
==========================================
+ Coverage   95.19%   95.20%   +0.01%     
==========================================
  Files          48       48              
  Lines        2268     2274       +6     
  Branches      128      127       -1     
==========================================
+ Hits         2159     2165       +6     
  Misses         81       81              
  Partials       28       28              

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