43 lines
2.0 KiB
Ruby
43 lines
2.0 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/1.16/bcftools-1.16.tar.bz2"
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sha256 "90bf647c9ad79e10a243b8058c873de057fd7012e250d5ae6574839787a2ecd6"
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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_ventura: "225a59b2ce3035845071b9b620c3c981bfd9d8185fb18090047b156c1b7105da"
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sha256 arm64_monterey: "65a2a78dd8fb87800fc5f46f020a73625cd1ac3a785a60140c473a96bd647ca0"
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sha256 arm64_big_sur: "b8bf1ee7fecde28d1facb2164ff6e398ed33c5ff1095129a2e323affbd0656d2"
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sha256 ventura: "0295cac1bd16a3438f5fc54f76600c81aa8bbc59a18a4c14f719797eee2d01bb"
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sha256 monterey: "82fb878c7e66acbe2e88da18ba11e6555b49d3c7ee857de606a1c7ea554472fe"
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sha256 big_sur: "50a2abedf76288f41c716d9e075712e20b6a1161e96ba0d77ed64f398f0d8df2"
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sha256 catalina: "4f59af51a89cbb746179dd7ce62f04e3d2c58ca1561cf6eeb00ed669d0550c36"
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sha256 cellar: :any_skip_relocation, x86_64_linux: "d2a6fd547af1d4e99e747d19c92c1c89a71a63544940581ce9281c0b28f9a5cb"
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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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