48 lines
2.4 KiB
Ruby
48 lines
2.4 KiB
Ruby
class Bwa < Formula
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desc "Burrow-Wheeler Aligner for pairwise alignment of DNA"
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homepage "https://github.com/lh3/bwa"
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url "https://github.com/lh3/bwa/releases/download/v0.7.17/bwa-0.7.17.tar.bz2"
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sha256 "de1b4d4e745c0b7fc3e107b5155a51ac063011d33a5d82696331ecf4bed8d0fd"
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license "GPL-3.0"
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head "https://github.com/lh3/bwa.git", branch: "master"
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bottle do
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sha256 cellar: :any_skip_relocation, arm64_ventura: "16f68f7c570fdc002ad5a75ddb23a7b4cf6c7993ff09b3e7aa39683e3f32b5b5"
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sha256 cellar: :any_skip_relocation, arm64_monterey: "c21d941893a927b1f362fb0f44d809cc81b5d4ec59f4073b5f39d081902f321b"
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sha256 cellar: :any_skip_relocation, arm64_big_sur: "4340d5a65a5c146033ea20710f9489ef2fe2a3b2c85937f3e71da141c44d4658"
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sha256 cellar: :any_skip_relocation, ventura: "70436d404c59f546c96157cfd4329980d51413346f2383ce96d9dcb5dbc6885b"
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sha256 cellar: :any_skip_relocation, monterey: "815da042557c670364ad899e1257f51c893979436beb1c016c8fdb6ad9ef734a"
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sha256 cellar: :any_skip_relocation, big_sur: "d67267aeea4145fef5e65fe1c8d9f9b34121c0339badf703811027db2570967a"
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sha256 cellar: :any_skip_relocation, catalina: "59b821b80f729fef923c3edb048478836c72d6aea34b245d1b292b2c3f893432"
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sha256 cellar: :any_skip_relocation, mojave: "6b07cef5ea1955d8a83e7b59ef8458a7604998f735f0eab85889fa3aedc7e953"
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sha256 cellar: :any_skip_relocation, high_sierra: "02da3eecd6569c193a55436f705c8d351d052e44b79a43d6afc50f7308603a73"
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sha256 cellar: :any_skip_relocation, sierra: "4db97125930b495fc34b6d161bea57171ac4bf2a5bf48ca1088a69a594874710"
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sha256 cellar: :any_skip_relocation, el_capitan: "bee09d138e9d8f45c12d6c99b48a3e6891b6e4d3f5c6a6847bfeaa28afc2f362"
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sha256 cellar: :any_skip_relocation, x86_64_linux: "3d875f0b64143cfb58e44681e47102158b46e0004c408d8fc5f10dc976383a94"
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end
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uses_from_macos "zlib"
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on_arm do
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depends_on "sse2neon" => :build
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end
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def install
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# PR ref: https://github.com/lh3/bwa/pull/344
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inreplace "ksw.c", "<emmintrin.h>", "<sse2neon.h>" if Hardware::CPU.arm?
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system "make"
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# "make install" requested 26 Dec 2017 https://github.com/lh3/bwa/issues/172
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bin.install "bwa"
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man1.install "bwa.1"
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end
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test do
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(testpath/"test.fasta").write ">0\nAGATGTGCTG\n"
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system bin/"bwa", "index", "test.fasta"
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assert_predicate testpath/"test.fasta.bwt", :exist?
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assert_match "AGATGTGCTG", shell_output("#{bin}/bwa mem test.fasta test.fasta")
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end
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end
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