53 lines
1.7 KiB
Ruby
53 lines
1.7 KiB
Ruby
class Mmseqs2 < Formula
|
|
desc "Software suite for very fast sequence search and clustering"
|
|
homepage "https://mmseqs.com/"
|
|
url "https://github.com/soedinglab/MMseqs2/archive/10-6d92c.tar.gz"
|
|
version "10-6d92c"
|
|
sha256 "62415e545706adc6e9e6689d34902f405ab5e5c67c8c7562bdd9dd4da2088697"
|
|
|
|
bottle do
|
|
cellar :any
|
|
sha256 "813552b3664a81c0ec2e6ef973acc7d1cb5fdacdc02ddaff4787366ef81b7827" => :mojave
|
|
sha256 "e229477bb366685e7725abb8a7ecfef9d74652266aa2761a7bfdc6b2bc20c39c" => :high_sierra
|
|
sha256 "3fdb5ce1ace58238f4011df2f1f437fdc25031012b6a2e1a95c158a12b2acc3d" => :sierra
|
|
end
|
|
|
|
depends_on "cmake" => :build
|
|
depends_on "gcc"
|
|
|
|
cxxstdlib_check :skip
|
|
|
|
fails_with :clang # needs OpenMP support
|
|
|
|
resource "documentation" do
|
|
url "https://github.com/soedinglab/MMseqs2.wiki.git",
|
|
:revision => "03da86a5c553d00c8d4484e9fbd8d68ef14e1169"
|
|
end
|
|
|
|
def install
|
|
args = *std_cmake_args << "-DHAVE_TESTS=0" << "-DHAVE_MPI=0"
|
|
args << "-DVERSION_OVERRIDE=#{version}"
|
|
args << "-DHAVE_SSE4_1=1"
|
|
|
|
system "cmake", ".", *args
|
|
system "make", "install"
|
|
|
|
resource("documentation").stage { doc.install Dir["*"] }
|
|
pkgshare.install "examples"
|
|
bash_completion.install "util/bash-completion.sh" => "mmseqs.sh"
|
|
end
|
|
|
|
def caveats
|
|
unless Hardware::CPU.sse4?
|
|
"MMseqs2 requires at least SSE4.1 CPU instruction support."
|
|
end
|
|
end
|
|
|
|
test do
|
|
system "#{bin}/mmseqs", "createdb", "#{pkgshare}/examples/QUERY.fasta", "q"
|
|
system "#{bin}/mmseqs", "cluster", "q", "res", "tmp", "-s", "1"
|
|
system "#{bin}/mmseqs", "createtsv", "q", "q", "res", "res.tsv"
|
|
assert_predicate testpath/"res.tsv", :exist?
|
|
assert_predicate (testpath/"res.tsv").size, :positive?
|
|
end
|
|
end
|