646b892680
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59 lines
1.5 KiB
Nix
59 lines
1.5 KiB
Nix
{
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lib,
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stdenv,
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fetchFromGitHub,
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fetchpatch,
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zlib,
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kssd,
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runCommand,
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}:
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stdenv.mkDerivation (finalAttrs: {
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pname = "kssd";
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version = "2.21-unstable-2024-05-27";
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src = fetchFromGitHub {
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owner = "yhg926";
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repo = "public_kssd";
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rev = "ce96b66dddc2d6c1ce611ad84cdf4c7ba62b4aa5";
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hash = "sha256-qafPyDl+pDfnJ7S6mHBHht2OcQEQeV2kQM+ir5LTGFA=";
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};
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patches = [
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# https://github.com/yhg926/public_kssd/pull/11
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(fetchpatch {
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name = "allocate-enough-memory.patch";
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url = "https://github.com/yhg926/public_kssd/commit/b1e66bbcc04687bc3201301cd742a0b26a87cb5d.patch";
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hash = "sha256-yFyJetpsGKeu+H6Oxrmn5ea4ESVtblb3YJDja4JEAEM=";
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})
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];
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buildInputs = [ zlib ];
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installPhase = ''
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runHook preInstall
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install -vD kssd $out/bin/kssd
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runHook postInstall
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'';
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passthru.tests = {
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simple = runCommand "${finalAttrs.pname}-test" { } ''
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mkdir $out
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${lib.getExe kssd} dist -L ${kssd.src}/shuf_file/L3K10.shuf -r ${kssd.src}/test_fna/seqs1 -o $out/reference
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${lib.getExe kssd} dist -L ${kssd.src}/shuf_file/L3K10.shuf -o $out/query ${kssd.src}/test_fna/seqs2
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${lib.getExe kssd} dist -r $out/reference -o $out/distout $out/query
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'';
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};
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meta = {
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description = "K-mer substring space decomposition";
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license = lib.licenses.asl20;
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homepage = "https://github.com/yhg926/public_kssd";
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maintainers = with lib.maintainers; [ unode ];
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platforms = lib.platforms.linux;
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mainProgram = "kssd";
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};
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})
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