[FIX] Overwrite kmer and window configuration from sketch file to current config.

[smehringer]

I just had this use case.

I created a sketch file with k=32, w=32.

Then I ran chopper with the sketch file without setting k and w again on the command line (since in the layout I am not re-sketching and besides sketching I do not use k and w).

I compared some layouts and noticed that my layout file (created as above from a sketch file) stated k=19, w=19. Now even though the layout shouldn't be influenced, this is wrong for the subsequent build step. Because when building from layout I do not reconfigure k and w. So my index will be built on k=19 and w=19. :(

[seqan-actions]

Documentation preview available at https://docs.seqan.de/preview/seqan/chopper/273

[codecov]

Codecov Report

Attention: Patch coverage is 75.00000% with 1 line in your changes missing coverage. Please review.

Project coverage is 95.53%. Comparing base (1222ae9) to head (1cae4a8).
Report is 1 commits behind head on main.

Files with missing lines	Patch %	Lines
src/chopper_layout.cpp	75.00%	1 Missing ⚠️

Additional details and impacted files

@@            Coverage Diff             @@
##             main     #273      +/-   ##
==========================================
- Coverage   95.64%   95.53%   -0.11%     
==========================================
  Files          20       20              
  Lines         758      762       +4     
  Branches       16       17       +1     
==========================================
+ Hits          725      728       +3     
- Misses         33       34       +1     

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