# 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 *
import os


class Tmhmm(Package):
    """Transmembrane helices in proteins

       Note: A manual download is required for TMHMM.
       Spack will search your current directory for the download file.
       Alternatively, add this file to a mirror so that Spack can find it.
       For instructions on how to set up a mirror, see
       http://spack.readthedocs.io/en/latest/mirrors.html"""

    homepage = "http://www.cbs.dtu.dk/cgi-bin/nph-sw_request?tmhmm"
    url      = "file://{0}/tmhmm-2.0c.Linux.tar.gz".format(os.getcwd())

    version('2.0c', '359db0c4ecf84d1ade5786abe844d54e')

    depends_on('perl', type='run')

    def patch(self):
        with working_dir('bin'):
            tmhmm = FileFilter('tmhmmformat.pl')
            tmhmm.filter('#!/usr/local/bin/perl -w',
                         '#!/usr/bin/env perl')
            tmhmm = FileFilter('tmhmm')
            tmhmm.filter('#!/usr/local/bin/perl',
                         '#!/usr/bin/env perl')

    def install(self, spec, prefix):
        install_tree('bin', prefix.bin)
        install_tree('lib', prefix.lib)