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/v0.9.19.tar.gz"
  sha256 "fab783f51af9010666f2b569f438fb38843d0201fe0c0e167db5b70d12459e30"

  bottle do
    cellar :any_skip_relocation
    sha256 "2bf4ea935582b1067d55fa7be055ee99672735ed8bc32895a0d324adb28bfc41" => :high_sierra
    sha256 "4bc9bfd4876ad1d275ab4fdec81281c5a451e09a1313b1c152ec57d90bee7b3b" => :sierra
    sha256 "1840af34d7791e348adaae0243674affd2610e4104df9cae5bc0cf5fa9b95d73" => :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