diff --git a/pkgs/applications/science/misc/snakemake/default.nix b/pkgs/applications/science/misc/snakemake/default.nix
index 13eae15ce7f5..c82a89e739ce 100644
--- a/pkgs/applications/science/misc/snakemake/default.nix
+++ b/pkgs/applications/science/misc/snakemake/default.nix
@@ -2,7 +2,7 @@
 
 python3Packages.buildPythonApplication rec {
   pname = "snakemake";
-  version = "5.8.1";
+  version = "5.9.1";
 
   propagatedBuildInputs = with python3Packages; [
     appdirs
@@ -20,7 +20,7 @@ python3Packages.buildPythonApplication rec {
 
   src = python3Packages.fetchPypi {
     inherit pname version;
-    sha256 = "1r1qi14klmxmmw7vcivp45jrjka5rcwlcfggj5npnfb378fx3hb0";
+    sha256 = "0s3y5pz9vqxpj5bx8y7ymh3zmsiyrk7sp8zwqwpva3mli7ky81pz";
   };
 
   doCheck = false; # Tests depend on Google Cloud credentials at ${HOME}/gcloud-service-key.json