54 lines
2.5 KiB
Python
54 lines
2.5 KiB
Python
##############################################################################
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# Copyright (c) 2013-2017, 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 RDeseq2(RPackage):
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"""Estimate variance-mean dependence in count data from
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high-throughput sequencing assays and test for differential
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expression based on a model using the negative binomial
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distribution."""
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homepage = "https://www.bioconductor.org/packages/DESeq2/"
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url = "https://git.bioconductor.org/packages/DESeq2"
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version('1.16.1', git='https://git.bioconductor.org/packages/DESeq2', commit='0a815574382704a08ef8b906eceb0296f81cded5')
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depends_on('r@3.4.0:3.4.9', when='@1.16.1')
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depends_on("r-rcpparmadillo", 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-genomicranges', type=('build', 'run'))
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depends_on('r-summarizedexperiment', type=('build', 'run'))
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depends_on('r-biocgenerics', type=('build', 'run'))
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depends_on('r-biobase', type=('build', 'run'))
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depends_on('r-biocparallel', type=('build', 'run'))
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depends_on('r-genefilter', type=('build', 'run'))
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depends_on('r-locfit', type=('build', 'run'))
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depends_on('r-geneplotter', type=('build', 'run'))
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depends_on('r-ggplot2', type=('build', 'run'))
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depends_on('r-hmisc', type=('build', 'run'))
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depends_on('r-rcpp', type=('build', 'run'))
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