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103 lines
2.1 KiB
Nix
103 lines
2.1 KiB
Nix
{
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lib,
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stdenv,
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fetchFromGitHub,
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simde,
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zlib,
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enableSse4_1 ? stdenv.hostPlatform.sse4_1Support,
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enableAvx ? stdenv.hostPlatform.avxSupport,
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enablePython ? false,
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python3Packages,
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runCommand,
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abpoa,
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}:
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stdenv.mkDerivation (finalAttrs: {
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pname = "${lib.optionalString enablePython "py"}abpoa";
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version = "1.5.4";
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src = fetchFromGitHub {
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owner = "yangao07";
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repo = "abPOA";
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tag = "v${finalAttrs.version}";
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hash = "sha256-E6XdiRULgJy9rf4NfXGBqUC+m0pMZKMsA5pHvCNNLJk=";
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};
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patches = [ ./simd-arch.patch ];
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postPatch = ''
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cp -r ${simde.src}/* include/simde
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substituteInPlace Makefile \
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--replace-fail "-march=native" ""
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'';
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nativeBuildInputs = lib.optionals enablePython (
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with python3Packages;
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[
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cython_0
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pypaBuildHook
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pypaInstallHook
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pythonImportsCheckHook
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setuptools
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]
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);
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buildFlags = lib.optionals stdenv.hostPlatform.isx86_64 [
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(
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if enableAvx then
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"avx2=1"
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else if enableSse4_1 then
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"sse41=1"
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else
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"sse2=1"
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)
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];
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env = lib.optionalAttrs enablePython (
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if enableAvx then
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{ "AVX2" = 1; }
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else if enableSse4_1 then
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{ "SSE41" = 1; }
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else
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{ "SSE2" = 1; }
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);
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buildInputs = [ zlib ];
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installPhase = lib.optionalString (!enablePython) ''
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runHook preInstall
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install -Dm755 ./bin/abpoa* $out/bin/abpoa
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runHook postInstall
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'';
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pythonImportsCheck = [ "pyabpoa" ];
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doInstallCheck = enablePython;
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installCheckPhase = ''
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runHook preInstallCheck
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python python/example.py
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runHook postInstallCheck
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'';
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passthru.tests = {
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simple = runCommand "${finalAttrs.pname}-test" { } ''
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${lib.getExe abpoa} ${abpoa.src}/test_data/seq.fa > $out
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'';
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};
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meta = {
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description = "SIMD-based C library for fast partial order alignment using adaptive band";
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homepage = "https://github.com/yangao07/abPOA";
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changelog = "https://github.com/yangao07/abPOA/releases/tag/v${finalAttrs.version}";
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license = lib.licenses.mit;
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maintainers = with lib.maintainers; [ natsukium ];
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mainProgram = "abpoa";
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platforms = lib.platforms.unix;
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};
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})
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