nixpkgs/pkgs/applications/science/biology/snpeff/default.nix

35 lines
1,013 B
Nix

{lib, stdenv, fetchurl, jre, unzip, makeWrapper}:
stdenv.mkDerivation rec {
pname = "snpeff";
version = "4.3t";
src = fetchurl {
url = "mirror://sourceforge/project/snpeff/snpEff_v${builtins.replaceStrings [ "." ] [ "_" ] version}_core.zip";
sha256 = "0i12mv93bfv8xjwc3rs2x73d6hkvi7kgbbbx3ry984l3ly4p6nnm";
};
nativeBuildInputs = [ makeWrapper ];
buildInputs = [ unzip jre ];
sourceRoot = "snpEff";
installPhase = ''
mkdir -p $out/libexec/snpeff
cp *.jar *.config $out/libexec/snpeff
mkdir -p $out/bin
makeWrapper ${jre}/bin/java $out/bin/snpeff --add-flags "-jar $out/libexec/snpeff/snpEff.jar"
makeWrapper ${jre}/bin/java $out/bin/snpsift --add-flags "-jar $out/libexec/snpeff/SnpSift.jar"
'';
meta = with lib; {
description = "Genetic variant annotation and effect prediction toolbox";
license = licenses.lgpl3;
homepage = "http://snpeff.sourceforge.net/";
maintainers = with maintainers; [ jbedo ];
platforms = platforms.all;
};
}