diff --git a/pkgs/applications/science/biology/bedops/default.nix b/pkgs/applications/science/biology/bedops/default.nix
index 407ed0c01f76..e7379ee382a4 100644
--- a/pkgs/applications/science/biology/bedops/default.nix
+++ b/pkgs/applications/science/biology/bedops/default.nix
@@ -2,13 +2,13 @@
 
 stdenv.mkDerivation rec {
   pname = "bedops";
-  version = "2.4.39";
+  version = "2.4.40";
 
   src = fetchFromGitHub {
     owner = "bedops";
     repo = "bedops";
     rev = "v${version}";
-    sha256 = "sha256-vPrut3uhZK1Eg9vPcyxVNWW4zKeypdsb28oM1xbbpJo=";
+    sha256 = "sha256-rJVl3KbzGblyQZ7FtJXeEv/wjQJmzYGNjzhvkoMoBWY=";
   };
 
   buildInputs = [ zlib bzip2 jansson ];