petab.calculate: compare all common columns

[dweindl]

For computing residuals, ... from measurement + simulation tables, we need to match the corresponding rows. Previously, this was done using a subset of PEtab measurement table columns and checking whether all values in these columns match.

This changes it to using the full set of overlapping columns, not only the known measurement columns.
With that, the same functions can be used for PEtab v2 measurement/simulation tables.

[dilpath]

👍

Could make sense to only check official PEtab columns and avoid custom ones, but I don't see a reason why the custom columns would differ either, so fine 👍

[codecov-commenter]

Codecov Report

Attention: Patch coverage is 50.00000% with 2 lines in your changes missing coverage. Please review.

Project coverage is 74.61%. Comparing base (cc33da2) to head (82f392d).

Files with missing lines	Patch %	Lines
petab/v1/calculate.py	50.00%	1 Missing and 1 partial ⚠️

Additional details and impacted files

@@             Coverage Diff             @@
##           develop     #347      +/-   ##
===========================================
- Coverage    74.67%   74.61%   -0.06%     
===========================================
  Files           56       56              
  Lines         5575     5571       -4     
  Branches       977      978       +1     
===========================================
- Hits          4163     4157       -6     
- Misses        1040     1041       +1     
- Partials       372      373       +1     

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