old_contents: ##############################################################################
  # Copyright (c) 2013-2018, Lawrence Livermore National Security, LLC.
  # Produced at the Lawrence Livermore National Laboratory.
  #
  # This file is part of Spack.
  # Created by Todd Gamblin, tgamblin@llnl.gov, All rights reserved.
  # LLNL-CODE-647188
  #
  # For details, see https://github.com/spack/spack
  # Please also see the NOTICE and LICENSE files for our notice and the LGPL.
  #
  # This program is free software; you can redistribute it and/or modify
  # it under the terms of the GNU Lesser General Public License (as
  # published by the Free Software Foundation) version 2.1, February 1999.
  #
  # This program is distributed in the hope that it will be useful, but
  # WITHOUT ANY WARRANTY; without even the IMPLIED WARRANTY OF
  # MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the terms and
  # conditions of the GNU Lesser General Public License for more details.
  #
  # You should have received a copy of the GNU Lesser General Public
  # License along with this program; if not, write to the Free Software
  # Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
  ##############################################################################
  from spack import *
  
  
  class Paml(MakefilePackage):
      """PAML is a package of programs for phylogenetic analyses of DNA or
         protein sewuences using maximum likelihood."""
  
      homepage = "http://abacus.gene.ucl.ac.uk/software/paml.html"
      url      = "http://abacus.gene.ucl.ac.uk/software/paml4.9e.tgz"
  
      version('4.9e', 'ac5a062bfea1f4eaac79008434030acf')
  
      build_directory = 'src'
  
      def install(self, spec, prefix):
          mkdirp(prefix.bin)
          with working_dir(self.build_directory):
              install('baseml', prefix.bin)
              install('basemlg', prefix.bin)
              install('chi2', prefix.bin)
              install('codeml', prefix.bin)
              install('evolver', prefix.bin)
              install('infinitesites', prefix.bin)
              install('mcmctree', prefix.bin)
              install('pamp', prefix.bin)
              install('yn00', prefix.bin)
          install_tree('dat', prefix.dat)
          install_tree('Technical', prefix.Technical)
  
new_contents: ##############################################################################
  # Copyright (c) 2013-2018, Lawrence Livermore National Security, LLC.
  # Produced at the Lawrence Livermore National Laboratory.
  #
  # This file is part of Spack.
  # Created by Todd Gamblin, tgamblin@llnl.gov, All rights reserved.
  # LLNL-CODE-647188
  #
  # For details, see https://github.com/spack/spack
  # Please also see the NOTICE and LICENSE files for our notice and the LGPL.
  #
  # This program is free software; you can redistribute it and/or modify
  # it under the terms of the GNU Lesser General Public License (as
  # published by the Free Software Foundation) version 2.1, February 1999.
  #
  # This program is distributed in the hope that it will be useful, but
  # WITHOUT ANY WARRANTY; without even the IMPLIED WARRANTY OF
  # MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the terms and
  # conditions of the GNU Lesser General Public License for more details.
  #
  # You should have received a copy of the GNU Lesser General Public
  # License along with this program; if not, write to the Free Software
  # Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
  ##############################################################################
  from spack import *
  
  
  class Paml(MakefilePackage):
      """PAML is a package of programs for phylogenetic analyses of DNA or
         protein sewuences using maximum likelihood."""
  
      homepage = "http://abacus.gene.ucl.ac.uk/software/paml.html"
      url      = "http://abacus.gene.ucl.ac.uk/software/paml4.9h.tgz"
  
      version('4.9h', sha256='623bf6cf4a018a4e7b4dbba189c41d6c0c25fdca3a0ae24703b82965c772edb3')
  
      build_directory = 'src'
  
      def install(self, spec, prefix):
          mkdirp(prefix.bin)
          with working_dir(self.build_directory):
              install('baseml', prefix.bin)
              install('basemlg', prefix.bin)
              install('chi2', prefix.bin)
              install('codeml', prefix.bin)
              install('evolver', prefix.bin)
              install('infinitesites', prefix.bin)
              install('mcmctree', prefix.bin)
              install('pamp', prefix.bin)
              install('yn00', prefix.bin)
          install_tree('dat', prefix.dat)
          install_tree('Technical', prefix.Technical)
  
subject: remove old version, added 4.9h (#9360)