##############################################################################
# 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 RBiovizbase(RPackage):
    """The biovizBase package is designed to provide a set of
    utilities, color schemes and conventions for genomic data.
    It serves as the base for various high-level packages for
    biological data visualization. This saves development effort
    and encourages consistency."""

    homepage = "http://bioconductor.org/packages/biovizBase/"
    git      = "https://git.bioconductor.org/packages/biovizBase.git"

    version('1.24.0', commit='ae9cd2ff665b74a8f45ed9c1d17fc0a778b4af6c')

    depends_on('r@3.4.0:3.4.9', when='@1.24.0')
    depends_on('r-scales', type=('build', 'run'))
    depends_on('r-hmisc', type=('build', 'run'))
    depends_on('r-rcolorbrewer', type=('build', 'run'))
    depends_on('r-dichromat', type=('build', 'run'))
    depends_on('r-biocgenerics', type=('build', 'run'))
    depends_on('r-s4vectors', type=('build', 'run'))
    depends_on('r-iranges', type=('build', 'run'))
    depends_on('r-genomeinfodb', type=('build', 'run'))
    depends_on('r-genomicranges', type=('build', 'run'))
    depends_on('r-summarizedexperiment', type=('build', 'run'))
    depends_on('r-biostrings', type=('build', 'run'))
    depends_on('r-rsamtools', type=('build', 'run'))
    depends_on('r-genomicalignments', type=('build', 'run'))
    depends_on('r-genomicfeatures', type=('build', 'run'))
    depends_on('r-annotationdbi', type=('build', 'run'))
    depends_on('r-variantannotation', type=('build', 'run'))
    depends_on('r-ensembldb', type=('build', 'run'))
    depends_on('r-annotationfilter', type=('build', 'run'))