31 lines
1.1 KiB
Ruby
31 lines
1.1 KiB
Ruby
class Bcftools < Formula
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desc "Tools for BCF/VCF files and variant calling from samtools"
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homepage "https://www.htslib.org/"
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url "https://github.com/samtools/bcftools/releases/download/1.9/bcftools-1.9.tar.bz2"
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sha256 "6f36d0e6f16ec4acf88649fb1565d443acf0ba40f25a9afd87f14d14d13070c8"
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revision 1
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bottle do
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sha256 "4305f9079357716f0aff1d93980c4f2e1e6a2b364fe393545284cf8b6701f3e7" => :mojave
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sha256 "46dc97038ccd6482801e6260a234f591115e7da598634a63442bacbd0c1f7700" => :high_sierra
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sha256 "f43e5a0e40dcec92d183b9014a1b06f3fb0452c81ee8c2b4ed159c84bafb5b62" => :sierra
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end
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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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