49 lines
1.6 KiB
Ruby
49 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/2.0.2/abyss-2.0.2.tar.gz"
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sha256 "d87b76edeac3a6fb48f24a1d63f243d8278a324c9a5eb29027b640f7089422df"
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revision 1
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bottle do
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cellar :any
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sha256 "bb42b5757cde66dcde18e1731e0a081f5e7f9182966ea562f72b32cd4e5d9ca5" => :high_sierra
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sha256 "8e9cd77ba6b8aba80b5914ef9a806ac2bc0ea9f6605331db06e1bf968c2e5528" => :sierra
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sha256 "4d89dd6066d55b4252a0707216dabf4e60065bdb2ad72cdb3a4d87a0bd70be80" => :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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needs :openmp
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depends_on "boost" => :build
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depends_on "google-sparsehash" => :build
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depends_on :mpi => :cc
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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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