Large scale perf - #194

Merged

jeromekelleher merged 19 commits into

tskit-dev:mainfrom

jeromekelleher:large-scale-perf

Sep 22, 2026

Commits on Sep 3, 2026

Benchmark genetic_value on a simulation small enough to iterate on
jeromekelleher
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f004ae3
Make the individual level an output mapping of the descent
jeromekelleher
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0273e8c
Build the trees in numba, wired to nothing yet
jeromekelleher
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ecef33f
Send common causal alleles down a descent of the trees
jeromekelleher
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b54570a
Default to the descent, which measured faster everywhere
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ec3e541
Record what the descent does to the working set
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8ffd22f
Delete the push down, which lost to the descent everywhere
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9b12346
Interpret the tree building kernels under the nojit tests
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9f0bb96
Divide the causal sites between threads on request
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aca6627

Commits on Sep 22, 2026

Hand num_threads through sim_phenotype
jeromekelleher
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97f0e48
Stop checking in a benchmark baseline
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13c0f9f
Correct what the genetic value speedup is attributed to
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a0d90d7
Say why uniformly drawn causal sites cost so much more
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bb2dbeb
Cut the results out of the benchmark README
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41bfb47
Cut the changelog entries down to the house style
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5b13346