diff options
Diffstat (limited to 'nixpkgs/pkgs/applications/science/biology/hisat2/default.nix')
-rw-r--r-- | nixpkgs/pkgs/applications/science/biology/hisat2/default.nix | 46 |
1 files changed, 46 insertions, 0 deletions
diff --git a/nixpkgs/pkgs/applications/science/biology/hisat2/default.nix b/nixpkgs/pkgs/applications/science/biology/hisat2/default.nix new file mode 100644 index 000000000000..67c39031b773 --- /dev/null +++ b/nixpkgs/pkgs/applications/science/biology/hisat2/default.nix @@ -0,0 +1,46 @@ +{lib, stdenv, fetchFromGitHub, unzip, which, python3, perl}: + +stdenv.mkDerivation rec { + pname = "hisat2"; + version = "2.2.1"; + + src = fetchFromGitHub { + owner = "DaehwanKimLab"; + repo = "hisat2"; + rev = "v${version}"; + sha256 = "0lmzdhzjkvxw7n5w40pbv5fgzd4cz0f9pxczswn3d4cr0k10k754"; + }; + + nativeBuildInputs = [ unzip which ]; + buildInputs = [ python3 perl ]; + + installPhase = '' + mkdir -p $out/bin + cp hisat2 \ + hisat2-inspect-l \ + hisat2-build-s \ + hisat2-align-l \ + hisat2-inspect \ + hisat2-align-s \ + hisat2-inspect-s \ + hisat2-build-l \ + hisat2-build \ + extract_exons.py \ + extract_splice_sites.py \ + hisat2_extract_exons.py \ + hisat2_extract_snps_haplotypes_UCSC.py \ + hisat2_extract_snps_haplotypes_VCF.py \ + hisat2_extract_splice_sites.py \ + hisat2_simulate_reads.py \ + $out/bin + ''; + + meta = with lib; { + description = "Graph based aligner"; + license = licenses.gpl3Plus; + homepage = "https://daehwankimlab.github.io/hisat2/"; + maintainers = with maintainers; [ jbedo ]; + platforms = [ "x86_64-linux" "i686-linux" ]; + }; + +} |