47 lines
1.7 KiB
Ruby
47 lines
1.7 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/1.14/htslib-1.14.tar.bz2"
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sha256 "ed221b8f52f4812f810eebe0cc56cd8355a5c9d21c62d142ac05ad0da147935f"
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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_monterey: "75ad52abf7902d356ecd260cdc922220879284462d3178194e14e57b87b21cdd"
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sha256 cellar: :any, arm64_big_sur: "01178faca1c4825644c4f45d719c547d97eea893ece6eaff9aba9ba3e06155c3"
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sha256 cellar: :any, monterey: "fdd1fb62df77a796745eb09f9b348c78176703f4deeb593a8f881845c4b426d5"
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sha256 cellar: :any, big_sur: "cf7d3aa06fb89dca0f35f9184d2f431897fc290ed20b90c838cea235c4de814c"
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sha256 cellar: :any, catalina: "89e858252df0b8fec7e07dc82159bb4a9cb629ff54eb5848b319baef41197e26"
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sha256 cellar: :any_skip_relocation, x86_64_linux: "90d770d787efcc137b83a491385683949861a0c5a9084e8eae66ff4ff47ce432"
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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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