45 lines
1.4 KiB
Ruby
45 lines
1.4 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/1.12/htslib-1.12.tar.bz2"
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sha256 "2280141b46e953ba4ae01b98335a84f8e6ccbdb6d5cdbab7f70ee4f7e3b6f4ca"
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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: "7df497b0d0ffc8370403fb973ebd143e8c2776978f7f6aaeed045e1ff17c3121"
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sha256 cellar: :any, big_sur: "337d53e97fef7ccad36110c39283f261d377442573182743ac892fa6bf2e0ed5"
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sha256 cellar: :any, catalina: "884b19991c4f1ac91b4ece1979a1585947283dc8eaa2ac12275b8e44e14d4e4b"
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sha256 cellar: :any, mojave: "1c65a9f4187196a2bc689a5a0299e7b9eafd0a192ca1b0e6ae924a9d13e8974b"
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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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