Optimize run_lake by copying precompiled config folders, renaming Aeneas config, and dynamically patching trace indices to achieve a ~19% run_lake speedup

[joshlf]

---

• 　  Polish code comments across setup.rs and aeneas.rs to strictly conform to comment-guidelines (80-column wrapping, objective tone, self-contained descriptions) #3342
• 👉 Optimize run_lake by copying precompiled config folders, renaming Aeneas config, and dynamically patching trace indices to achieve a ~19% run_lake speedup #3341
• 　  Implement optimized symlink-copy package materializer and static commit hash bypass to achieve 40x speedup and 100% concurrent safety #3340
• 　  [anneal] Remove redundant integration test harness code #3339
• 　  [anneal] Don't copy Lean deps into build dir #3338

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Checkout

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🤖 Optimistically Approved: Changes appear scoped. Final strict verification will occur in the Merge Queue.

[codecov-commenter]

Codecov Report

✅ All modified and coverable lines are covered by tests.
✅ Project coverage is 91.88%. Comparing base (d38657f) to head (6ee8501).

Additional details and impacted files

@@                        Coverage Diff                         @@
##           G6m2dgvttkspnsz2l5d2cp5imkbcdaxg6    #3341   +/-   ##
==================================================================
  Coverage                              91.88%   91.88%           
==================================================================
  Files                                     20       20           
  Lines                                   6076     6076           
==================================================================
  Hits                                    5583     5583           
  Misses                                   493      493           

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