<commit_before>class Gubbins < Formula
  desc "Detect recombinations in Bacteria"
  homepage "https://github.com/sanger-pathogens/gubbins"
  url "https://github.com/sanger-pathogens/gubbins/archive/v2.2.0.tar.gz"
  sha256 "245bc70d05b9f0f3ea10e6a20203ac049d1b912c1af8cf9b90763fd38e148cb2"
  revision 1
  head "https://github.com/sanger-pathogens/gubbins.git"
  # tag "bioinformatics"
  # doi "10.1093/nar/gku1196"

  bottle do
    cellar :any
    sha256 "da9c94b3c66bf5ff3a3d0989f55ef523e34f8f6da458cfc94a36adf94ba32704" => :sierra
    sha256 "bd712d8809191a02e4d44fbfc1ff81c660e5fa1aa095dbcc39e1170e60d65be3" => :el_capitan
    sha256 "ed58aa0d84ccd546baeda682998956977ad9dd206f1234611da5305a6a217346" => :yosemite
    sha256 "34ea764e566a4a8bb67b57abcc27b5e58b39d0ddf769a16c88dc44f779f2f18d" => :x86_64_linux
  end

  depends_on "autoconf"  => :build
  depends_on "automake"  => :build
  depends_on "libtool"   => :build
  depends_on "check"     => :build
  depends_on :python3
  depends_on "numpy" => ["with-python3", "without-python"]
  depends_on "pillow" => ["with-python3", "without-python"]
  depends_on "raxml"
  depends_on "fasttree" => ["with-double", :recommended]
  unless OS.mac?<commit_msg>gubbins: remove dependency options of numpy pillow<commit_after>class Gubbins < Formula
  desc "Detect recombinations in Bacteria"
  homepage "https://github.com/sanger-pathogens/gubbins"
  url "https://github.com/sanger-pathogens/gubbins/archive/v2.2.0.tar.gz"
  sha256 "245bc70d05b9f0f3ea10e6a20203ac049d1b912c1af8cf9b90763fd38e148cb2"
  revision 2
  head "https://github.com/sanger-pathogens/gubbins.git"
  # tag "bioinformatics"
  # doi "10.1093/nar/gku1196"

  bottle do
    cellar :any
    sha256 "da9c94b3c66bf5ff3a3d0989f55ef523e34f8f6da458cfc94a36adf94ba32704" => :sierra
    sha256 "bd712d8809191a02e4d44fbfc1ff81c660e5fa1aa095dbcc39e1170e60d65be3" => :el_capitan
    sha256 "ed58aa0d84ccd546baeda682998956977ad9dd206f1234611da5305a6a217346" => :yosemite
    sha256 "34ea764e566a4a8bb67b57abcc27b5e58b39d0ddf769a16c88dc44f779f2f18d" => :x86_64_linux
  end

  depends_on "autoconf"  => :build
  depends_on "automake"  => :build
  depends_on "libtool"   => :build
  depends_on "check"     => :build
  depends_on :python3
  depends_on "numpy"
  depends_on "pillow"
  depends_on "raxml"
  depends_on "fasttree" => ["with-double", :recommended]
  unless OS.mac?
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