2017-12-22 00:52:34 +00:00
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class Bcftools < Formula
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desc "Tools for BCF/VCF files and variant calling from samtools"
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2018-02-15 18:16:24 +00:00
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homepage "https://www.htslib.org/"
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2018-04-03 21:38:04 +00:00
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url "https://github.com/samtools/bcftools/releases/download/1.8/bcftools-1.8.tar.bz2"
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sha256 "4acbfd691f137742e0be63d09f516434f0faf617a5c60f466140e0677915fced"
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2017-12-22 00:52:34 +00:00
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2017-12-22 23:30:55 +00:00
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bottle do
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2018-04-04 01:08:50 +00:00
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sha256 "a351142dcda713f6fe24dcb5d685eff732b70c93be4db5bd972c4558f0805a5f" => :high_sierra
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sha256 "6ee6f7174793a748c252796b83e7d356c5328ca9570aab3242528abe7132dd8b" => :sierra
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sha256 "b7cc2a872c25a84b3a8f1fdb8243239c5a9914009fbfaf06ab677554de56194c" => :el_capitan
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2017-12-22 23:30:55 +00:00
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end
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2017-12-22 00:52:34 +00:00
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depends_on "gsl"
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depends_on "htslib"
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depends_on "xz"
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def install
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system "./configure", "--prefix=#{prefix}",
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"--with-htslib=#{Formula["htslib"].opt_prefix}",
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"--enable-libgsl"
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system "make", "install"
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pkgshare.install "test/query.vcf"
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end
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test do
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output = shell_output("#{bin}/bcftools stats #{pkgshare}/query.vcf")
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assert_match "number of SNPs:\t3", output
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assert_match "fixploidy", shell_output("#{bin}/bcftools plugin -l")
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end
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end
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