From 3f421d70e4f927a33169dca1f3e369cc90b16c25 Mon Sep 17 00:00:00 2001
From: tmozgach <tmozgach@sfu.ca>
Date: Thu, 21 Dec 2017 16:36:39 -0800
Subject: [PATCH] diamond: import from homebrew/science

Closes #22014.

Signed-off-by: ilovezfs <ilovezfs@icloud.com>
---
 Formula/diamond.rb | 38 ++++++++++++++++++++++++++++++++++++++
 1 file changed, 38 insertions(+)
 create mode 100644 Formula/diamond.rb

diff --git a/Formula/diamond.rb b/Formula/diamond.rb
new file mode 100644
index 00000000000..e1f0dddab84
--- /dev/null
+++ b/Formula/diamond.rb
@@ -0,0 +1,38 @@
+class Diamond < Formula
+  desc "Accelerated BLAST compatible local sequence aligner"
+  homepage "https://ab.inf.uni-tuebingen.de/software/diamond/"
+  url "https://github.com/bbuchfink/diamond/archive/v0.9.13.tar.gz"
+  sha256 "066d2744ef9e8f3d6f7eba5e6eb226434299b18574c8716bbdd8faca31b325de"
+
+  depends_on "cmake" => :build
+
+  def install
+    system "cmake", ".", *std_cmake_args
+    system "make", "install"
+  end
+
+  test do
+    (testpath/"nr.faa").write <<~EOS
+      >gnl|alu|HSU14568_Alu_Sb_consensus_rf1
+      grarwltpvipalweaeaggsrgqeietilantvkprlyXkyknXpgvvagacspsysgg
+      XgrrmaXtreaelavsrdratalqpgrqsetpsqkk
+      >gnl|alu|HSU14568_Alu_Sb_consensus_rf2
+      agrggsrlXsqhfgrprradhevrrsrpswltrXnpvstkntkisrawwrapvvpatrea
+      eagewrepgrrslqXaeiaplhsslgdrarlrlkk
+      >gnl|alu|HSU14568_Alu_Sb_consensus_rf3
+      pgavahacnpstlggrggritrsgdrdhpgXhgetpsllkiqklagrgggrlXsqllgrl
+      rqengvnpgggacseprsrhctpawaterdsvskk
+      >gnl|alu|HSU14568_Alu_Sb_consensus_rf-1
+      fflrrslalsprlecsgaisahcklrlpgsrhspasasrvagttgarhharlifvflvet
+      gfhrvsqdgldlltsXsarlglpkcwdyrrepprpa
+      >gnl|alu|HSU14568_Alu_Sb_consensus_rf-2
+      ffXdgvslcrpgwsavarsrltassasrvhaillpqppeXlglqapattpgXflyfXXrr
+      gftvlarmvsisXprdppasasqsagitgvshrar
+      >gnl|alu|HSU14568_Alu_Sb_consensus_rf-3
+      ffetesrsvaqagvqwrdlgslqapppgftpfsclslpsswdyrrppprpanfcifsrdg
+      vspcXpgwsrspdlvirpprppkvlglqaXatapg
+    EOS
+    output = shell_output("#{bin}/diamond makedb --in nr.faa -d nr")
+    assert_match "Processed 6 sequences, 572 letters.", output
+  end
+end