perf: SIMD acceleration and hot-path optimizations via Highway#663

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KimBioInfoStudio wants to merge 14 commits intoOpenGene:masterfrom

KimBioInfoStudio:perf/optimizations

Commits on Mar 2, 2026

perf: eliminate hot-path heap allocations in processing pipeline

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perf: add SIMD acceleration via Google Highway for core hot paths

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perf: replace per-base switch statements with lookup tables

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fix: harden SIMD implementation for correctness and portability

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perf: use TableLookupBytes for reverseComplement SIMD

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build: use system Highway library instead of vendored submodule

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cleanup: remove unused legacy src/zlib/ headers

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docs: add Highway dependency install instructions

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ci: use ubuntu-latest and macos-latest runners

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build: static linking by default and prefer system headers

KimBioInfoStudio
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ci: build Highway static library on macOS for fully static binary

KimBioInfoStudio
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claude
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perf: SIMD-accelerate adapter trimming with bounded mismatch counting

KimBioInfoStudio
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claude
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Commits on Mar 3, 2026