69 lines
3.4 KiB
Python
69 lines
3.4 KiB
Python
##############################################################################
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# Copyright (c) 2013-2018, Lawrence Livermore National Security, LLC.
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# Produced at the Lawrence Livermore National Laboratory.
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#
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# This file is part of Spack.
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# Created by Todd Gamblin, tgamblin@llnl.gov, All rights reserved.
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# LLNL-CODE-647188
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#
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# For details, see https://github.com/spack/spack
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# Please also see the NOTICE and LICENSE files for our notice and the LGPL.
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#
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# This program is free software; you can redistribute it and/or modify
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# it under the terms of the GNU Lesser General Public License (as
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# published by the Free Software Foundation) version 2.1, February 1999.
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#
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# This program is distributed in the hope that it will be useful, but
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# WITHOUT ANY WARRANTY; without even the IMPLIED WARRANTY OF
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# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the terms and
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# conditions of the GNU Lesser General Public License for more details.
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#
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# You should have received a copy of the GNU Lesser General Public
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# License along with this program; if not, write to the Free Software
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# Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
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##############################################################################
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from spack import *
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class RGgbio(RPackage):
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"""The ggbio package extends and specializes the grammar of graphics for
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biological data. The graphics are designed to answer common scientific
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questions, in particular those often asked of high throughput genomics
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data. All core Bioconductor data structures are supported, where
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appropriate. The package supports detailed views of particular genomic
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regions, as well as genome-wide overviews. Supported overviews include
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ideograms and grand linear views. High-level plots include sequence
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fragment length, edge-linked interval to data view, mismatch pileup,
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and several splicing summaries."""
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homepage = "http://bioconductor.org/packages/ggbio/"
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git = "https://git.bioconductor.org/packages/ggbio.git"
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version('1.24.1', commit='ef04c1bca1330f37152bcc21080cbde94849a094')
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depends_on('r-gridextra', type=('build', 'run'))
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depends_on('r-scales', type=('build', 'run'))
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depends_on('r-reshape2', type=('build', 'run'))
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depends_on('r-gtable', type=('build', 'run'))
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depends_on('r-hmisc', type=('build', 'run'))
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depends_on('r-biovizbase', type=('build', 'run'))
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depends_on('r-biobase', type=('build', 'run'))
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depends_on('r-s4vectors', type=('build', 'run'))
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depends_on('r-iranges', type=('build', 'run'))
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depends_on('r-genomeinfodb', type=('build', 'run'))
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depends_on('r-genomicranges', type=('build', 'run'))
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depends_on('r-summarizedexperiment', type=('build', 'run'))
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depends_on('r-biostrings', type=('build', 'run'))
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depends_on('r-rsamtools', type=('build', 'run'))
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depends_on('r-genomicalignments', type=('build', 'run'))
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depends_on('r-bsgenome', type=('build', 'run'))
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depends_on('r-variantannotation', type=('build', 'run'))
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depends_on('r-rtracklayer', type=('build', 'run'))
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depends_on('r-genomicfeatures', type=('build', 'run'))
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depends_on('r-organismdbi', type=('build', 'run'))
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depends_on('r-ggally', type=('build', 'run'))
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depends_on('r-ensembldb', type=('build', 'run'))
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depends_on('r-annotationdbi', type=('build', 'run'))
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depends_on('r-annotationfilter', type=('build', 'run'))
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depends_on('r@3.4.0:3.4.9', when='@1.24.1')
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