2017-12-18 20:24:35 +00:00
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class Kallisto < Formula
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desc "Quantify abundances of transcripts from RNA-Seq data"
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homepage "https://pachterlab.github.io/kallisto/"
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url "https://github.com/pachterlab/kallisto/archive/v0.43.1.tar.gz"
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sha256 "2164938c2c61c04e338c4c132cf749f56d39e6f0b4c517121bca1fbc218e430e"
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revision 1
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2017-12-31 08:58:09 +00:00
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bottle do
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cellar :any
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sha256 "7def510bff1b872bff522fc561ccf197d2810f1d8df8fa3bf1870225ec74bd6a" => :high_sierra
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sha256 "975be5f037dfc6a47b65ef79bc3c3a9a0583e7eaa36add776a034a7bdf7f3893" => :sierra
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sha256 "9174135661c12414338e2a5280ee31951f97e8d55bd30ba423099e9b872da42e" => :el_capitan
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end
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2017-12-18 20:24:35 +00:00
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depends_on "cmake" => :build
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depends_on "hdf5"
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def install
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system "cmake", ".", *std_cmake_args
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system "make", "install"
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end
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test do
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(testpath/"test.fasta").write <<~EOS
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>seq0
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FQTWEEFSRAAEKLYLADPMKVRVVLKYRHVDGNLCIKVTDDLVCLVYRTDQAQDVKKIEKF
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EOS
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output = shell_output("#{bin}/kallisto index -i test.index test.fasta 2>&1")
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assert_match "has 1 contigs and contains 32 k-mers", output
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end
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end
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