37 lines
1.2 KiB
Ruby
37 lines
1.2 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/1.10.2/bcftools-1.10.2.tar.bz2"
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sha256 "f57301869d0055ce3b8e26d8ad880c0c1989bf25eaec8ea5db99b60e31354e2c"
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license "MIT"
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livecheck do
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url "https://github.com/samtools/bcftools/releases/latest"
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regex(%r{href=.*?/tag/v?(\d+(?:\.\d+)+)["' >]}i)
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end
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bottle do
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sha256 "6d232b149d6f1edc21116002d675d1f62ab0bf73158e67802ecb94091fa1ceaa" => :catalina
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sha256 "deb19fb24a4a943cf577b31b53f6aecf55e195fb62133e6b613d5e657e5dbbe0" => :mojave
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sha256 "af4d6172e2cdd40aaa8c49c6e4e8fde3cb90bf7f04f516bd1d1673e3e1659c73" => :high_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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