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/1.10/bcftools-1.10.tar.bz2"
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sha256 "2a37721b944772633f334cc0897c43430d56cf59d7363b72d5cd2cfc9ae3af83"
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bottle do
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sha256 "1937e40aa679e318739a7539c005b5b4cf4b464b70580804c473bfd4f60e1343" => :catalina
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sha256 "fd0fc2e7301bfdbe6c6bc8f1d89f3c70dcae4785b7d74cc450c7d7d9758efdd6" => :mojave
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sha256 "77553a88c85fb00925a8bb4f9d4d00ce3f81bb5e7643a9029ab29fa7d8f6dc4e" => :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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