snakemake: init at 5.2.2

maintainers/maintainer-list.nix

@@ -3381,6 +3381,11 @@
     github = "relrod";
     name = "Ricky Elrod";
   };
+  renatoGarcia = {
+    email = "fgarcia.renato@gmail.com";
+    github = "renatoGarcia";
+    name = "Renato Garcia";
+  };
   renzo = {
     email = "renzocarbonara@gmail.com";
     github = "k0001";

pkgs/applications/science/misc/snakemake/default.nix

@@ -0,0 +1,45 @@
+{ stdenv, fetchFromBitbucket, python }:
+
+let
+  version = "5.2.2";
+  sha256 = "08nf0kfkj9wipaskmxpsv3ndha0wgkmmgb2hpdkkkzdz6n3l9bkq";
+in python.buildPythonApplication {
+  inherit version;
+  pname = "snakemake";
+
+  src = fetchFromBitbucket {
+    owner = "snakemake";
+    repo = "snakemake";
+    rev = "v${version}";
+    inherit sha256;
+  };
+
+  doCheck = false;
+
+  propagatedBuildInputs = [
+    python.appdirs
+    python.datrie
+    python.ConfigArgParse
+    python.pyyaml
+    python.jsonschema
+    python.ratelimiter
+    python.docutils
+    python.wrapt
+    python.requests
+  ];
+
+  meta = with stdenv.lib; {
+    homepage = https://snakemake.bitbucket.io;
+    description = "Workflow management system that aims to reduce the complexity of creating workflows.";
+    license = licenses.mit;
+    longDescription = ''
+      Snakemake is a workflow management system that aims to reduce the complexity of
+      creating workflows by providing a fast and comfortable execution environment,
+      together with a clean and readable specification language in Python style. Snakemake
+      workflows are essentially Python scripts extended by declarative code to define
+      rules. Rules describe how to create output files from input files.
+    '';
+    platforms = platforms.all;
+    maintainers = [ maintainers.renatoGarcia ];
+  };
+}

pkgs/development/python-modules/ratelimiter/default.nix

@@ -0,0 +1,32 @@
+{ stdenv, buildPythonPackage, fetchPypi, pytest }:
+
+let
+  pname = "ratelimiter";
+  version = "1.2.0.post0";
+in buildPythonPackage {
+  inherit pname version;
+
+  src = fetchPypi {
+    inherit pname version;
+    sha256 = "5c395dcabdbbde2e5178ef3f89b568a3066454a6ddc223b76473dac22f89b4f7";
+  };
+
+  preConfigure = ''
+    export LC_ALL="en_US.UTF-8"
+  '';
+
+  buildInputs = [ pytest ];
+
+  meta = with stdenv.lib; {
+    homepage = https://github.com/RazerM/ratelimiter;
+    description = "Simple Python module providing rate limiting";
+    license = licenses.asl20;
+    longDescription = ''
+    The RateLimiter module ensures that an operation will not be executed more than a
+    given number of times on a given period. This can prove useful when working with third
+    parties APIs which require for example a maximum of 10 requests per second.
+    '';
+    platforms = platforms.all;
+    maintainers = [ maintainers.renatoGarcia ];
+  };
+}

pkgs/top-level/all-packages.nix

@@ -8679,6 +8679,8 @@ with pkgs;
 
   smc = callPackage ../tools/misc/smc { };
 
+  snakemake = callPackage ../applications/science/misc/snakemake { python = python3Packages; };
+
   snowman = qt5.callPackage ../development/tools/analysis/snowman { };
 
   sparse = callPackage ../development/tools/analysis/sparse { };

pkgs/top-level/python-packages.nix

@@ -17377,6 +17377,8 @@ EOF
   libtorrentRasterbar = (toPythonModule (pkgs.libtorrentRasterbar.override {
     inherit python;
   })).python;
+
+  ratelimiter = callPackage ../development/python-modules/ratelimiter { };
 });
 
 in fix' (extends overrides packages)