Merge pull request #34156 from arcadio/star

star: init at 2.5.3a

pkgs/applications/science/biology/star/default.nix

@@ -0,0 +1,34 @@
+{ stdenv, fetchFromGitHub, zlib }:
+
+stdenv.mkDerivation rec {
+  name = "star-${version}";
+  version = "2.5.3a";
+
+  src = fetchFromGitHub {
+    repo = "STAR";
+    owner = "alexdobin";
+    rev = version;
+    sha256 = "1fd9xl7i1zxgsxn2qf6gz8s42g2djm29qmp6qb35d8nnxh8ns54x";
+  };
+
+  sourceRoot = "source/source";
+  
+  postPatch = "sed 's:/bin/rm:rm:g' -i Makefile";
+  
+  buildInputs = [ zlib ];
+  
+  buildPhase = "make STAR STARlong";
+
+  installPhase = ''
+    mkdir -p $out/bin
+    cp STAR STARlong $out/bin
+  '';
+  
+  meta = with stdenv.lib; {
+    description = "Spliced Transcripts Alignment to a Reference";
+    homepage = https://github.com/alexdobin/STAR;
+    license = licenses.gpl3Plus;
+    platforms = platforms.linux;
+    maintainers = [ maintainers.arcadio ];
+  };
+}

pkgs/top-level/all-packages.nix

@@ -18992,6 +18992,8 @@ with pkgs;
 
   snpeff = callPackage ../applications/science/biology/snpeff/default.nix { };
 
+  star = callPackage ../applications/science/biology/star { };
+
   varscan = callPackage ../applications/science/biology/varscan/default.nix { };
 
   bwa = callPackage ../applications/science/biology/bwa/default.nix { };