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@stschiff stschiff commented May 6, 2025

Hi @nevrome, I've updated stack and the Poseidon-hs dependency. As you may remember, the major change here concerns the genotype data (now featuring zipping and VCF), and this in turn affects the AdmixPops program. I've already made a number of changes, but perhaps you can do the rest as you are more familiar with that subcommand?

@stschiff stschiff changed the title Poseidon-hs and stack update Poseidon-hs and stackage update May 7, 2025
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codecov bot commented May 7, 2025

Codecov Report

Attention: Patch coverage is 33.33333% with 4 lines in your changes missing coverage. Please review.

Project coverage is 6.62%. Comparing base (0e9e2e0) to head (230f960).

Files with missing lines Patch % Lines
src/Poseidon/Analysis/CLI/FStats.hs 0.00% 4 Missing ⚠️
Additional details and impacted files
@@          Coverage Diff          @@
##            main     #35   +/-   ##
=====================================
  Coverage   6.62%   6.62%           
=====================================
  Files          3       3           
  Lines        528     528           
  Branches       1       1           
=====================================
  Hits          35      35           
  Misses       492     492           
  Partials       1       1           

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stschiff commented May 7, 2025

OK, so I've implemented the minimal changes to AdmixPops to make it compile and tests pass. Note that neither VCF nor the zipping feature is currently used.

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nevrome commented May 13, 2025

I think the changes to admixpops are complete. Writing of .vcf and zipped output works.

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3 participants