perf: 1.76x speedup via SIMD, allocation elimination, and lookup tables #84

	name: fastp ci
	on:
	pull_request:
	branches:
	- master

	concurrency:
	group: ${{ github.workflow }}-${{ github.event.pull_request.number \|\| github.ref }}
	cancel-in-progress: true

	jobs:
	build-static:
	strategy:
	fail-fast: false
	matrix:
	os:
	- ubuntu-24.04
	- macos-14
	runs-on: ${{ matrix.os }}
	steps:
	- name: checkout with submodules
	uses: actions/checkout@v4
	with:
	submodules: recursive

	- name: Get number of CPU cores
	uses: SimenB/github-actions-cpu-cores@v2
	id: cpu-cores

	- name: install build dependencies (Ubuntu)
	run: sudo apt update && sudo apt install -y build-essential nasm cmake
	if: runner.os == 'Linux'

	- name: make fastp static
	run: make static -j ${{ steps.cpu-cores.outputs.count }}

	- name: test
	run: ./fastp --version

	- name: test run
	run: ./fastp -i testdata/R1.fq -o /dev/null

	build-link:
	runs-on: ubuntu-24.04
	steps:
	- name: checkout with submodules
	uses: actions/checkout@v4
	with:
	submodules: recursive

	- name: Get number of CPU cores
	uses: SimenB/github-actions-cpu-cores@v2
	id: cpu-cores

	- name: install system libraries
	run: sudo apt update && sudo apt install -y build-essential libisal-dev libdeflate-dev

	- name: make fastp
	run: make -j ${{ steps.cpu-cores.outputs.count }}

	- name: test
	run: ./fastp --version

	- name: test run
	run: ./fastp -i testdata/R1.fq -o /dev/null

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