class Diamond < Formula
  desc "Accelerated BLAST compatible local sequence aligner"
  homepage "https://ab.inf.uni-tuebingen.de/software/diamond/"
  url "https://github.com/bbuchfink/diamond/archive/v0.9.22.tar.gz"
  sha256 "35e518cfa0ac2fbc57e422d380bdb5123c6335742dd7965b76c34c95f241b729"

  bottle do
    cellar :any_skip_relocation
    sha256 "31c196b7b7d312e6e700650da58ca61e7154b442ff89d69800003821d164f3d3" => :mojave
    sha256 "469c7756dc9eca0ed7ebd8a156af03da9352ac0358f2bcfd0eb3d346d00b6d51" => :high_sierra
    sha256 "607d100998ea30e170cf8660efd0db2ada0cf2aff0fc01d753b8f562780f1066" => :sierra
    sha256 "6b5c96a2c5847c0e6ecef931175082b90c4436d91fbcd7331cda92a9bb682bb5" => :el_capitan
  end

  depends_on "cmake" => :build

  def install
    system "cmake", ".", *std_cmake_args
    system "make", "install"
  end

  test do
    (testpath/"nr.faa").write <<~EOS
      >gnl|alu|HSU14568_Alu_Sb_consensus_rf1
      grarwltpvipalweaeaggsrgqeietilantvkprlyXkyknXpgvvagacspsysgg
      XgrrmaXtreaelavsrdratalqpgrqsetpsqkk
      >gnl|alu|HSU14568_Alu_Sb_consensus_rf2
      agrggsrlXsqhfgrprradhevrrsrpswltrXnpvstkntkisrawwrapvvpatrea
      eagewrepgrrslqXaeiaplhsslgdrarlrlkk
      >gnl|alu|HSU14568_Alu_Sb_consensus_rf3
      pgavahacnpstlggrggritrsgdrdhpgXhgetpsllkiqklagrgggrlXsqllgrl
      rqengvnpgggacseprsrhctpawaterdsvskk
      >gnl|alu|HSU14568_Alu_Sb_consensus_rf-1
      fflrrslalsprlecsgaisahcklrlpgsrhspasasrvagttgarhharlifvflvet
      gfhrvsqdgldlltsXsarlglpkcwdyrrepprpa
      >gnl|alu|HSU14568_Alu_Sb_consensus_rf-2
      ffXdgvslcrpgwsavarsrltassasrvhaillpqppeXlglqapattpgXflyfXXrr
      gftvlarmvsisXprdppasasqsagitgvshrar
      >gnl|alu|HSU14568_Alu_Sb_consensus_rf-3
      ffetesrsvaqagvqwrdlgslqapppgftpfsclslpsswdyrrppprpanfcifsrdg
      vspcXpgwsrspdlvirpprppkvlglqaXatapg
    EOS
    output = shell_output("#{bin}/diamond makedb --in nr.faa -d nr")
    assert_match "Processed 6 sequences, 572 letters.", output
  end
end