55 lines
2.9 KiB
Python
55 lines
2.9 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 RGenomicranges(RPackage):
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"""The ability to efficiently represent and manipulate genomic annotations
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and alignments is playing a central role when it comes to analyzing
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high-throughput sequencing data (a.k.a. NGS data). The GenomicRanges
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package defines general purpose containers for storing and manipulating
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genomic intervals and variables defined along a genome. More specialized
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containers for representing and manipulating short alignments against a
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reference genome, or a matrix-like summarization of an experiment, are
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defined in the GenomicAlignments and SummarizedExperiment packages
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respectively. Both packages build on top of the GenomicRanges
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infrastructure."""
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homepage = "https://bioconductor.org/packages/GenomicRanges/"
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url = "https://git.bioconductor.org/packages/GenomicRanges"
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list_url = homepage
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version('1.30.3', git='https://git.bioconductor.org/packages/GenomicRanges', commit='e99979054bc50ed8c0109bc54563036c1b368997')
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version('1.28.6', git='https://git.bioconductor.org/packages/GenomicRanges', commit='197472d618f3ed04c795dc6ed435500c29619563')
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depends_on('r-biocgenerics@0.21.2:', type=('build', 'run'))
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depends_on('r-s4vectors@0.9.47:', type=('build', 'run'))
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depends_on('r-iranges@2.9.11:', type=('build', 'run'), when='@1.28.6')
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depends_on('r-iranges@2.11.16:', type=('build', 'run'), when='@1.30.3')
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depends_on('r-genomeinfodb@1.11.5:', type=('build', 'run'), when='@1.28.6')
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depends_on('r-genomeinfodb@1.13.1:', type=('build', 'run'), when='@1.30.3')
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depends_on('r-xvector', type=('build', 'run'))
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depends_on('r@3.4.0:3.4.9', when='@1.28.6:')
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