30 lines
1.1 KiB
Ruby
30 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/1.7/bcftools-1.7.tar.bz2"
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sha256 "dd4f63d91b0dffb0f0ce88ac75c2387251930c8063f7799611265083f8d302d1"
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bottle do
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sha256 "55eb87755553c4679a31801e822b5975607196ef34021796e46f5f32a7bc397a" => :high_sierra
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sha256 "e395ccbbaa803a095d59437f76167e6b6d61053d3ee562ee848dc305d7b4bbee" => :sierra
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sha256 "bcfd075273b9918e5632e45b20f5ac5b1788540c02d41877bcc17f2041e687aa" => :el_capitan
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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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