Merge pull request #91647 from jbedo/whisper

whisper: init at 2.0.1

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

@@ -0,0 +1,34 @@
+{ stdenv, fetchFromGitHub, fetchurl }:
+
+stdenv.mkDerivation rec {
+  pname = "whisper";
+  version = "2.0.1";
+
+  src = fetchFromGitHub {
+    owner = "refresh-bio";
+    repo = pname;
+    rev = "v${version}";
+    sha256 = "0wpx1w1mar2d6zq2v14vy6nn896ds1n3zshxhhrrj5d528504iyw";
+  };
+
+  preConfigure = ''
+    cd src
+
+    # disable default static linking
+    sed -i 's/ -static / /' makefile
+  '';
+
+  installPhase = ''
+    runHook preInstall
+    install -Dt $out/bin whisper whisper-index
+    runHook postInstall
+  '';
+
+  meta = with stdenv.lib; {
+    description = "Short read sequence mapper";
+    license = licenses.gpl3;
+    homepage = "https://github.com/refresh-bio/whisper";
+    maintainers = with maintainers; [ jbedo ];
+    platforms = platforms.x86_64;
+  };
+}

pkgs/top-level/all-packages.nix

@@ -25464,6 +25464,8 @@ in
 
   varscan = callPackage ../applications/science/biology/varscan { };
 
+  whisper = callPackage ../applications/science/biology/whisper { };
+
   hmmer = callPackage ../applications/science/biology/hmmer { };
 
   bwa = callPackage ../applications/science/biology/bwa { };