Unverified Commit 2cb020b4 authored by Weijia Wang's avatar Weijia Wang Committed by GitHub
Browse files

hmmer: enable aarch64 support (#370495)

parents 4ed39fe8 2e4f197e

pkgs/by-name/ea/easel/package.nix

0 → 100644
+49 −0
Original line number Diff line number Diff line 
{

  lib,

  stdenv,

  fetchFromGitHub,

  autoreconfHook,

  perl,

  python3,

  versionCheckHook,

}:



stdenv.mkDerivation (finalAttrs: {

  pname = "easel";

  version = "0.49";



  src = fetchFromGitHub {

    owner = "EddyRivasLab";

    repo = "easel";

    tag = "easel-${finalAttrs.version}";

    hash = "sha256-NSKy7ptNYR0K/VFJNv+5TGWdC1ZM4Y5i/3L+3Coj/sg=";

  };



  nativeBuildInputs = [ autoreconfHook ];



  enableParallelBuilding = true;



  doCheck = true;



  nativeCheckInputs = [

    perl

    python3

  ];



  preCheck = ''

    patchShebangs devkit/sqc

  '';



  doInstallCheck = true;



  nativeInstallCheckInputs = [ versionCheckHook ];



  meta = {

    description = "Sequence analysis library used by Eddy/Rivas lab code";

    homepage = "https://github.com/EddyRivasLab/easel";

    license = lib.licenses.bsd2;

    mainProgram = "easel";

    maintainers = with lib.maintainers; [ natsukium ];

    platforms = lib.platforms.unix;

  };

})

pkgs/by-name/hm/hmmer/package.nix

+35 −10
Original line number Diff line number Diff line
@@ -2,18 +2,44 @@ 
  lib,

  stdenv,

  fetchurl,

  easel,

  perl,

  python3,

  versionCheckHook,

}:



stdenv.mkDerivation rec {

stdenv.mkDerivation (finalAttrs: {

  version = "3.4";

  pname = "hmmer";



  src = fetchurl {

    url = "http://eddylab.org/software/hmmer/${pname}-${version}.tar.gz";

    sha256 = "sha256-ynDZT9DPJxvXBjQjqrsRbULeUzEXNDqbJ6ZcF/8G+/M=";

    url = "http://eddylab.org/software/hmmer/hmmer-${finalAttrs.version}.tar.gz";

    hash = "sha256-ynDZT9DPJxvXBjQjqrsRbULeUzEXNDqbJ6ZcF/8G+/M=";

  };



  meta = with lib; {

  enableParallelBuilding = true;



  doCheck = true;



  nativeCheckInputs = [

    perl

    python3

  ];



  preCheck = ''

    install -Dm755 ${easel.src}/devkit/sqc easel/devkit/sqc

    patchShebangs easel/devkit/sqc testsuite/* src/hmmpress.itest.pl

  '';



  doInstallCheck = true;



  nativeInstallCheckInputs = [ versionCheckHook ];



  versionCheckProgram = "${placeholder "out"}/bin/hmmalign";



  versionCheckProgramArg = [ "-h" ];



  meta = {

    description = "Biosequence analysis using profile hidden Markov models";

    longDescription = ''

      HMMER is used for searching sequence databases for sequence homologs, and for making sequence alignments. It implements methods using probabilistic models called profile hidden Markov models (profile HMMs).
@@ -22,10 +48,9 @@ stdenv.mkDerivation rec { 
      HMMER can be downloaded and installed as a command line tool on your own hardware, and now it is also more widely accessible to the scientific community via new search servers at the European Bioinformatics Institute.

    '';

    homepage = "http://hmmer.org/";

    changelog = "https://github.com/EddyRivasLab/hmmer/blob/hmmer-${version}/release-notes/RELEASE-${version}.md";

    license = licenses.gpl3;

    maintainers = [ maintainers.iimog ];

    # at least SSE is *required*

    platforms = platforms.x86_64;

    changelog = "https://github.com/EddyRivasLab/hmmer/blob/hmmer-${finalAttrs.version}/release-notes/RELEASE-${finalAttrs.version}.md";

    license = lib.licenses.bsd3;

    maintainers = [ lib.maintainers.iimog ];

    platforms = lib.platforms.unix;

  };

}
 
})