Merge pull request #224185 from ankane/rna-star

rna-star 2.7.11b (new formula)

Author: BrewTestBot

Formula/r/rna-star.rb

@@ -0,0 +1,43 @@
+class RnaStar < Formula
+  desc "RNA-seq aligner"
+  homepage "https://github.com/alexdobin/STAR"
+  url "https://github.com/alexdobin/STAR/archive/refs/tags/2.7.11b.tar.gz"
+  version "2.7.11b"
+  sha256 "3f65305e4112bd154c7e22b333dcdaafc681f4a895048fa30fa7ae56cac408e7"
+  license all_of: ["MIT", "BSD-2-Clause"]
+
+  bottle do
+    sha256 cellar: :any_skip_relocation, arm64_sequoia: "df53db303004a937634a3eaa227119f92eac00286bc80df0558dd1db1e5bb314"
+    sha256 cellar: :any_skip_relocation, arm64_sonoma:  "c12dcd41638c9578c39ee0ecb0ec33996ee390690eb95d68b49f56f0f129c608"
+    sha256 cellar: :any_skip_relocation, arm64_ventura: "eef8d5c492f1e608a796350bd6a1fd0acfd46487c18ce901aeaf7aae8d570607"
+    sha256 cellar: :any_skip_relocation, sonoma:        "b53c13aeff5e16110831413444b3bea8e6bdecbf068950a7431d8e8744f8583b"
+    sha256 cellar: :any_skip_relocation, ventura:       "bf2216ad5cce311a52543ea4e1921a203ca6c1f03ed99057f977d804ed8326c5"
+    sha256 cellar: :any_skip_relocation, x86_64_linux:  "8766e41ed4f092c6fc9715603a34309012200a8db2cb2cd0bdea1c40534f64d6"
+  end
+
+  uses_from_macos "vim" => :build # needed for xxd
+  uses_from_macos "zlib"
+
+  on_macos do
+    depends_on "libomp"
+  end
+
+  def install
+    args = ["CXXFLAGS_SIMD="]
+    args << "CXXFLAGSextra=-D'COMPILE_FOR_MAC'" if OS.mac?
+
+    cd "source" do
+      system "make", "STAR", *args
+      bin.install "STAR"
+    end
+  end
+
+  test do
+    (testpath/"test.fasta").write <<~EOS
+      >U00096.2:1-70
+      AGCTTTTCATTCTGACTGCAACGGGCAATATGTCTCTGTGTGGATTAAAAAAAGAGTGTCTGATAGCAGC
+    EOS
+    out = shell_output("#{bin}/STAR --runMode genomeGenerate --genomeFastaFiles test.fasta --genomeSAindexNbases 2")
+    assert_match "finished successfully", out
+  end
+end