pkgs/by-name/hi/hisat2/package.nix

   1 {
   2   lib,
   3   stdenv,
   4   fetchFromGitHub,
   5   unzip,
   6   which,
   7   python3,
   8   perl,
   9 }:
  10
  11 stdenv.mkDerivation rec {
  12   pname = "hisat2";
  13   version = "2.2.1";
  14
  15   src = fetchFromGitHub {
  16     owner = "DaehwanKimLab";
  17     repo = "hisat2";
  18     rev = "v${version}";
  19     sha256 = "0lmzdhzjkvxw7n5w40pbv5fgzd4cz0f9pxczswn3d4cr0k10k754";
  20   };
  21
  22   nativeBuildInputs = [
  23     unzip
  24     which
  25   ];
  26   buildInputs = [
  27     python3
  28     perl
  29   ];
  30
  31   installPhase = ''
  32     mkdir -p $out/bin
  33     cp hisat2 \
  34        hisat2-inspect-l \
  35        hisat2-build-s \
  36        hisat2-align-l \
  37        hisat2-inspect \
  38        hisat2-align-s \
  39        hisat2-inspect-s \
  40        hisat2-build-l \
  41        hisat2-build \
  42        extract_exons.py \
  43        extract_splice_sites.py \
  44        hisat2_extract_exons.py \
  45        hisat2_extract_snps_haplotypes_UCSC.py \
  46        hisat2_extract_snps_haplotypes_VCF.py \
  47        hisat2_extract_splice_sites.py \
  48        hisat2_simulate_reads.py \
  49        $out/bin
  50   '';
  51
  52   meta = with lib; {
  53     description = "Graph based aligner";
  54     license = licenses.gpl3Plus;
  55     homepage = "https://daehwankimlab.github.io/hisat2/";
  56     maintainers = with maintainers; [ jbedo ];
  57     platforms = [
  58       "x86_64-linux"
  59       "i686-linux"
  60     ];
  61   };
  62
  63 }