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multitrait changes - #531

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bhaller wants to merge 349 commits into
masterfrom
multitrait
Open

multitrait changes#531
bhaller wants to merge 349 commits into
masterfrom
multitrait

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@bhaller

@bhaller bhaller commented Jul 2, 2025

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This branch is the long-term branch for changes to implement multiple phenotypic traits in SLiM; it will likely become SLiM 5.1 or SLiM 6.0. It is is active development, and will often not build; it is not recommended for end users until further notice.

@codecov

codecov Bot commented Dec 21, 2025

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Codecov Report

✅ All modified and coverable lines are covered by tests.
✅ Project coverage is 76.81%. Comparing base (b7d413d) to head (e9e1a24).

Additional details and impacted files

Impacted file tree graph

@@            Coverage Diff             @@
##           master     #531      +/-   ##
==========================================
+ Coverage   75.80%   76.81%   +1.01%     
==========================================
  Files         114      117       +3     
  Lines       72808    78766    +5958     
  Branches    12878    14297    +1419     
==========================================
+ Hits        55192    60504    +5312     
- Misses      17616    18262     +646     
Files with missing lines Coverage Δ
core/chromosome.cpp 71.42% <ø> (+0.36%) ⬆️
core/chromosome.h 52.85% <ø> (+4.37%) ⬆️
core/community.cpp 80.65% <ø> (+0.44%) ⬆️
core/community.h 100.00% <ø> (ø)
core/community_eidos.cpp 90.59% <ø> (-0.71%) ⬇️
core/genomic_element.cpp 68.88% <ø> (ø)
core/genomic_element.h 100.00% <ø> (ø)
core/genomic_element_type.cpp 82.62% <ø> (+0.63%) ⬆️
core/genomic_element_type.h 100.00% <ø> (ø)
core/haplosome.cpp 49.32% <ø> (+0.13%) ⬆️
... and 3 more

... and 77 files with indirect coverage changes

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bhaller and others added 30 commits July 29, 2026 16:23
Co-authored-by: Peter Ralph <petrel.harp@gmail.com>
put binary derived state into the mutation table metadata
error in schema and test machinery
shift the migrant flag from metadata to the flags column
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2 participants