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Expression Simulation#280

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colganwi merged 8 commits into
3.0.0from
expr-sim
Jun 8, 2026
Merged

Expression Simulation#280
colganwi merged 8 commits into
3.0.0from
expr-sim

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codecov Bot commented Jun 5, 2026

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Codecov Report

❌ Patch coverage is 82.73196% with 67 lines in your changes missing coverage. Please review.
✅ Project coverage is 87.12%. Comparing base (167881d) to head (38f0184).
⚠️ Report is 2 commits behind head on 3.0.0.

Files with missing lines Patch % Lines
src/cassiopeia/simulator/expression.py 88.88% 18 Missing ⚠️
src/cassiopeia/simulator/deprecated.py 14.28% 12 Missing ⚠️
src/cassiopeia/solver/hybrid.py 80.64% 12 Missing ⚠️
src/cassiopeia/dissimilarity/_metrics.py 50.00% 9 Missing ⚠️
src/cassiopeia/simulator/tracing.py 86.36% 9 Missing ⚠️
src/cassiopeia/solver/ilp.py 50.00% 4 Missing ⚠️
src/cassiopeia/solver/neighbor_joining.py 75.00% 1 Missing ⚠️
src/cassiopeia/solver/upgma.py 75.00% 1 Missing ⚠️
src/cassiopeia/utils.py 93.33% 1 Missing ⚠️
Additional details and impacted files
@@            Coverage Diff             @@
##            3.0.0     #280      +/-   ##
==========================================
- Coverage   87.89%   87.12%   -0.78%     
==========================================
  Files          59       57       -2     
  Lines        5666     5816     +150     
==========================================
+ Hits         4980     5067      +87     
- Misses        686      749      +63     
Files with missing lines Coverage Δ
src/cassiopeia/dissimilarity/__init__.py 100.00% <100.00%> (ø)
src/cassiopeia/dissimilarity/_pairwise.py 88.00% <100.00%> (+0.63%) ⬆️
src/cassiopeia/mixins/utilities.py 100.00% <100.00%> (ø)
src/cassiopeia/simulator/__init__.py 100.00% <100.00%> (ø)
src/cassiopeia/simulator/topology.py 98.28% <100.00%> (+0.03%) ⬆️
src/cassiopeia/solver/greedy.py 94.37% <100.00%> (+0.03%) ⬆️
src/cassiopeia/solver/neighbor_joining.py 78.21% <75.00%> (-0.58%) ⬇️
src/cassiopeia/solver/upgma.py 89.04% <75.00%> (-1.10%) ⬇️
src/cassiopeia/utils.py 86.50% <93.33%> (-4.90%) ⬇️
src/cassiopeia/solver/ilp.py 53.75% <50.00%> (-0.26%) ⬇️
... and 5 more

... and 2 files with indirect coverage changes

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@colganwi colganwi merged commit 5558c42 into 3.0.0 Jun 8, 2026
7 of 9 checks passed
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