# Copyright 2013-2019 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 *


class PacbioDextractor(MakefilePackage):
    """The Dextractor and Compression Command Library. This is a special
       fork required by some pacbio utilities."""

    homepage = "https://github.com/PacificBiosciences/DEXTRACTOR"
    git      = "https://github.com/PacificBiosciences/DEXTRACTOR.git"

    version('2016-08-09', commit='89726800346d0bed15d98dcc577f4c7733aab4b1')

    depends_on('hdf5')
    depends_on('gmake', type='build')

    def edit(self, spec, prefix):
        mkdirp(prefix.bin)
        makefile = FileFilter('Makefile')
        makefile.filter(r'PATH_HDF5\s*=\s*/sw/apps/hdf5/current',
                        'PATH_HDF5 = ' + spec['hdf5'].prefix)
        makefile.filter(r'PATH_HDF5\*s=\s*/usr/local/hdf5', '')
        makefile.filter(r'DEST_DIR\s*=\s*~/bin', 'DEST_DIR = ' + prefix.bin)
        gmf = FileFilter('GNUmakefile')
        gmf.filter(r'rsync\s*-av\s*\$\{ALL\}\s*\$\{PREFIX\}/bin',
                   'cp ${ALL} ' + prefix.bin)
