39 lines
1.5 KiB
Ruby
39 lines
1.5 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/1.14/bcftools-1.14.tar.bz2"
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sha256 "b7ef88ae89fcb55658c5bea2e8cb8e756b055e13860036d6be13756782aa19cb"
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# The bcftools source code is MIT/Expat-licensed, but when it is configured
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# with --enable-libgsl the resulting executable is GPL-licensed.
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license "GPL-3.0-or-later"
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livecheck do
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url :stable
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strategy :github_latest
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end
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bottle do
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sha256 arm64_big_sur: "13bc31d2086972697f374bcf68a24deaa389a57ed2adb4a3d432fd72a60ffcda"
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sha256 big_sur: "e4cd74edeaa7c41ae71263732822b732b8d1e7cde98ce813dcd1fc1d2bf0529e"
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sha256 catalina: "ddf5d0fe3d61c1386a383469a3bc7bb6bacc0ae11e6eaa3ef21ca3d38968e6a8"
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sha256 cellar: :any_skip_relocation, x86_64_linux: "8db6b53f0fe4b88ec4d1e41297a1487429b937e0579c0ba8ee2c67a5729216c3"
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end
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depends_on "gsl"
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depends_on "htslib"
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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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