46 lines
1.6 KiB
Ruby
46 lines
1.6 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/1.13/htslib-1.13.tar.bz2"
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sha256 "f2407df9f97f0bb6b07656579e41a1ca5100464067b6b21bf962a2ea4b0efd65"
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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_big_sur: "0f84a4bab64db1ae6333e415bbcba48ef8c659fd3e94182a4cfc4baf2e85d9e7"
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sha256 cellar: :any, big_sur: "1c18fea212fa8c79639aa73283277a9f38451d8c27b63942ae1d27082f86a712"
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sha256 cellar: :any, catalina: "f063c7ecbbace5ca9c5110ace1e45ad3629323108bfbd77b3d0cdfbeca7979c5"
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sha256 cellar: :any, mojave: "291e64099d31bffc8c3151e28702e611a5adf83d47aa123a53a4149a3374ad3a"
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sha256 cellar: :any_skip_relocation, x86_64_linux: "38e217917f15baa38f80d718e658b04786c648904a2293a19042489c630deb6a"
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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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