Address slow list operations in progress tracking.

[delucchi-cmu]

The current strategy of reading strings from file names, passing along those strings, and manually performing not in against constructed strings was taking foooorrrrreeeevvvveeeerrrrr in cases where there are 100k+ stages. This streamlines those operations, using integers and set operations where possible.

[codecov]

Codecov Report

All modified and coverable lines are covered by tests ✅

Project coverage is 94.55%. Comparing base (bacabec) to head (58f4630).

Additional details and impacted files

@@           Coverage Diff           @@
##             main     #468   +/-   ##
=======================================
  Coverage   94.55%   94.55%           
=======================================
  Files          28       28           
  Lines        1616     1617    +1     
=======================================
+ Hits         1528     1529    +1     
  Misses         88       88           

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[gitosaurus]

Looks good! Most of my comments are quite optional, but I believe that compiling the regexes is worth doing if we know the data volume is large here.

[gitosaurus]

LGTM!