text: # Copyright 2013-2018 Lawrence Livermore National Security, LLC and other
  # Spack Project Developers. See the top-level COPYRIGHT file for details.
  #
  # SPDX-License-Identifier: (Apache-2.0 OR MIT)
  
  
  from spack import *
  from os import symlink
  
  
  class Rmats(Package):
      """MATS is a computational tool to detect differential alternative
         splicing events from RNA-Seq data."""
  
      homepage = "https://rnaseq-mats.sourceforge.net/index.html"
      url      = "https://downloads.sourceforge.net/project/rnaseq-mats/MATS/rMATS.4.0.2.tgz"
  
      version('4.0.2', sha256='afab002a9ae836d396909aede96318f6dab6e5818078246419dd563624bf26d1')
  
      depends_on('python@2.7:', type='run')
      depends_on('py-numpy', type=('build', 'run'))
      depends_on('openblas')
  
      def install(self, spec, prefix):
          # since the tool is a python script we install it to /usr/lib
          install_tree('rMATS-turbo-Linux-UCS4', join_path(prefix.lib, 'rmats'))
  
          # the script has an appropriate shebang so a quick symlink will do
          set_executable(join_path(prefix.lib, 'rmats/rmats.py'))
          mkdirp(prefix.bin)
          symlink(join_path(prefix.lib, 'rmats/rmats.py'),
                  join_path(prefix.bin, 'rmats'))
  