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 RBiomart(RPackage):
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"""In recent years a wealth of biological data has become available in
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public data repositories. Easy access to these valuable data resources
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and firm integration with data analysis is needed for comprehensive
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bioinformatics data analysis. biomaRt provides an interface to a growing
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collection of databases implementing the BioMart software suite
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(http://www.biomart.org). The package enables retrieval of large amounts
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of data in a uniform way without the need to know the underlying
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database schemas or write complex SQL queries. Examples of BioMart
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databases are Ensembl, COSMIC, Uniprot, HGNC, Gramene, Wormbase and
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dbSNP mapped to Ensembl. These major databases give biomaRt users direct
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access to a diverse set of data and enable a wide range of powerful
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online queries from gene annotation to database mining."""
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homepage = "https://bioconductor.org/packages/biomaRt/"
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url = "https://git.bioconductor.org/packages/biomaRt"
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version('2.34.2', git='https://git.bioconductor.org/packages/biomaRt', commit='a7030915fbc6120cc6812aefdedba423a207459b')
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version('2.32.1', git='https://git.bioconductor.org/packages/biomaRt', commit='f84d74424fa599f6d08f8db4612ca09914a9087f')
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depends_on('r-xml', type=('build', 'run'))
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depends_on('r-rcurl', type=('build', 'run'))
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depends_on('r-annotationdbi', type=('build', 'run'))
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depends_on('r-progress', type=('build', 'run'), when='@2.34.2')
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depends_on('r-stringr', type=('build', 'run'), when='@2.34.2')
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depends_on('r-httr', type=('build', 'run'), when='@2.34.2')
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depends_on('r@3.4.0:3.4.9', when='@2.32.1:')
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