sambamba: init 0.7.1

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

@@ -0,0 +1,31 @@
+{ stdenv, fetchFromGitHub, python3, which, dmd, ldc, zlib }:
+
+stdenv.mkDerivation rec {
+  pname = "sambamba";
+  version = "0.7.1";
+
+  src = fetchFromGitHub {
+    owner = "biod";
+    repo = "sambamba";
+    rev = "v${version}";
+    sha256 = "0k5wy06zrbsc40x6answgz7rz2phadyqwlhi9nqxbfqanbg9kq20";
+    fetchSubmodules = true;
+  };
+
+  nativeBuildInputs = [ which python3 dmd ldc ];
+  buildInputs = [ zlib ];
+
+  # Upstream's install target is broken; copy manually
+  installPhase = ''
+    mkdir -p $out/bin
+    cp bin/sambamba-${version} $out/bin/sambamba
+  '';
+
+  meta = with stdenv.lib; {
+    description = "SAM/BAM processing tool";
+    homepage = "https://lomereiter.github.io/sambamba/";
+    maintainers = with maintainers; [ jbedo ];
+    license = with licenses; gpl2;
+    platforms = platforms.x86_64;
+  };
+}

pkgs/top-level/all-packages.nix

@@ -24919,6 +24919,8 @@ in
     mpi = true;
   });
 
+  sambamba = callPackage ../applications/science/biology/sambamba { };
+
   samblaster = callPackage ../applications/science/biology/samblaster { };
 
   samtools = callPackage ../applications/science/biology/samtools { };