48 lines
1.6 KiB
Ruby
48 lines
1.6 KiB
Ruby
class Abyss < Formula
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desc "Genome sequence assembler for short reads"
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homepage "http://www.bcgsc.ca/platform/bioinfo/software/abyss"
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url "https://github.com/bcgsc/abyss/releases/download/2.1.0/abyss-2.1.0.tar.gz"
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sha256 "fe28aee5e2ee24ea2c550518bfeb65577f8f9900831bf4fb0858ac1829fd86fa"
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revision 1
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bottle do
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sha256 "cced51c7524930f52dc80b4f7a5d444a58a1187d46a5bb1493cff54cbbfb9c05" => :high_sierra
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sha256 "ad906d48b6ae28236e962d4e0a5b23f8140fb1bbfa0e4a79832a71cfd34de296" => :sierra
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sha256 "2d3412f059574cc554ef1ae2fc50b952c9030aeefe6e413abb4a678a2c2bbf4f" => :el_capitan
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end
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head do
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url "https://github.com/bcgsc/abyss.git"
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depends_on "autoconf" => :build
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depends_on "automake" => :build
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depends_on "multimarkdown" => :build
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end
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depends_on "boost" => :build
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depends_on "google-sparsehash" => :build
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depends_on "gcc"
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depends_on "open-mpi"
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fails_with :clang # no OpenMP support
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resource("testdata") do
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url "http://www.bcgsc.ca/platform/bioinfo/software/abyss/releases/1.3.4/test-data.tar.gz"
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sha256 "28f8592203daf2d7c3b90887f9344ea54fda39451464a306ef0226224e5f4f0e"
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end
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def install
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system "./autogen.sh" if build.head?
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system "./configure", "--disable-dependency-tracking",
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"--disable-silent-rules",
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"--prefix=#{prefix}",
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"--enable-maxk=128"
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system "make", "install"
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end
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test do
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testpath.install resource("testdata")
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system "#{bin}/abyss-pe", "k=25", "name=ts", "in=reads1.fastq reads2.fastq"
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system "#{bin}/abyss-fac", "ts-unitigs.fa"
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end
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end
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