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author | Yifan Zhu <ifanzhu@foxmail.com> | 2017-09-29 16:33:40 -0500 |
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committer | Christoph Junghans <christoph.junghans@gmail.com> | 2017-09-29 15:33:40 -0600 |
commit | 06a6c6a399ca36ab582cebe4ed7c0cdc9ccdd096 (patch) | |
tree | c938f4b0be5435ea6359c7887603f67650bd8528 /var | |
parent | 18029f5f4718e9e170d588b3622a959de11501c5 (diff) | |
download | spack-06a6c6a399ca36ab582cebe4ed7c0cdc9ccdd096.tar.gz spack-06a6c6a399ca36ab582cebe4ed7c0cdc9ccdd096.tar.bz2 spack-06a6c6a399ca36ab582cebe4ed7c0cdc9ccdd096.tar.xz spack-06a6c6a399ca36ab582cebe4ed7c0cdc9ccdd096.zip |
r-biomart: created new package (#5554)
Diffstat (limited to 'var')
-rw-r--r-- | var/spack/repos/builtin/packages/r-biomart/package.py | 49 |
1 files changed, 49 insertions, 0 deletions
diff --git a/var/spack/repos/builtin/packages/r-biomart/package.py b/var/spack/repos/builtin/packages/r-biomart/package.py new file mode 100644 index 0000000000..9b3a95b433 --- /dev/null +++ b/var/spack/repos/builtin/packages/r-biomart/package.py @@ -0,0 +1,49 @@ +############################################################################## +# Copyright (c) 2013-2017, 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/llnl/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 RBiomart(RPackage): + """In recent years a wealth of biological data has become available in + public data repositories. Easy access to these valuable data resources + and firm integration with data analysis is needed for comprehensive + bioinformatics data analysis. biomaRt provides an interface to a growing + collection of databases implementing the BioMart software suite + (http://www.biomart.org). The package enables retrieval of large amounts + of data in a uniform way without the need to know the underlying + database schemas or write complex SQL queries. Examples of BioMart + databases are Ensembl, COSMIC, Uniprot, HGNC, Gramene, Wormbase and + dbSNP mapped to Ensembl. These major databases give biomaRt users direct + access to a diverse set of data and enable a wide range of powerful + online queries from gene annotation to database mining.""" + + homepage = "https://bioconductor.org/packages/biomaRt/" + url = "https://bioconductor.org/packages/3.5/bioc/src/contrib/biomaRt_2.32.1.tar.gz" + + version('2.32.1', '9c7f4547dbf4582fc88ca0c65f789328') + + depends_on('r-xml', type=('build', 'run')) + depends_on('r-rcurl', type=('build', 'run')) + depends_on('r-annotationdbi', type=('build', 'run')) |