49 lines
2.0 KiB
Ruby
49 lines
2.0 KiB
Ruby
class Htslib < Formula
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desc "C library for high-throughput sequencing data formats"
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homepage "https://www.htslib.org/"
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url "https://github.com/samtools/htslib/releases/download/1.16/htslib-1.16.tar.bz2"
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sha256 "606b7c7aff73734cf033ecd156f40529fa5792f54524952a28938ca0890d7924"
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license "MIT"
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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 cellar: :any, arm64_ventura: "eacb91f61003001f6517121793e7bceb98c20634053b27bcd162dfabd3023bc9"
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sha256 cellar: :any, arm64_monterey: "aa04c43c00b9334233a3a696b5f4aef768f751ff822d5260cc984c514771479d"
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sha256 cellar: :any, arm64_big_sur: "521f1a883ef338cbed57d4f229ef7c7c1ce14d8e05e289e2fb5906c4d900bcc2"
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sha256 cellar: :any, ventura: "5e3b6670df6fbdd79e38fa60b88dd51bfb3e3cd1569933de24a94b3c92c183d1"
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sha256 cellar: :any, monterey: "ee3572c2f0fbafe3cb1692de2742adb6316a3fe765660b61af425055980f8bc8"
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sha256 cellar: :any, big_sur: "0e3a99fb0f0946b8f9d08b1eaec32b3501cc462fee89568b9ce05184e83f42db"
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sha256 cellar: :any, catalina: "2aef4311f74d3991b2f6830197d08027b5837da86f36f0fff28afbffc5f026e2"
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sha256 cellar: :any_skip_relocation, x86_64_linux: "22d79594ce6ad700cf122f5574edc5e624d31392ad727a8797b484797f955186"
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end
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depends_on "xz"
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uses_from_macos "bzip2"
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uses_from_macos "curl"
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uses_from_macos "zlib"
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def install
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system "./configure", "--prefix=#{prefix}", "--enable-libcurl"
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system "make", "install"
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end
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test do
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sam = testpath/"test.sam"
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sam.write <<~EOS
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@SQ SN:chr1 LN:500
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r1 0 chr1 100 0 4M * 0 0 ATGC ABCD
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r2 0 chr1 200 0 4M * 0 0 AATT EFGH
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EOS
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assert_match "SAM", shell_output("#{bin}/htsfile #{sam}")
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system "#{bin}/bgzip -c #{sam} > sam.gz"
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assert_predicate testpath/"sam.gz", :exist?
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system "#{bin}/tabix", "-p", "sam", "sam.gz"
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assert_predicate testpath/"sam.gz.tbi", :exist?
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end
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end
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