49 lines
2.5 KiB
Python
49 lines
2.5 KiB
Python
# Copyright 2013-2022 Lawrence Livermore National Security, LLC and other
|
|
# Spack Project Developers. See the top-level COPYRIGHT file for details.
|
|
#
|
|
# SPDX-License-Identifier: (Apache-2.0 OR MIT)
|
|
|
|
from spack.package import *
|
|
|
|
|
|
class RBiomart(RPackage):
|
|
"""Interface to BioMart databases (i.e. Ensembl).
|
|
|
|
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. The most prominent
|
|
examples of BioMart databases are maintain by Ensembl, which provides
|
|
biomaRt users direct access to a diverse set of data and enables a wide
|
|
range of powerful online queries from gene annotation to database
|
|
mining."""
|
|
|
|
bioc = "biomaRt"
|
|
|
|
version('2.52.0', commit='cf4932ac02686da45ea36ff5137fa63cead8860b')
|
|
version('2.50.3', commit='83a519ac13d73dc545cb6aafde5f4b5001e9e08f')
|
|
version('2.46.2', commit='90d6abfdfa04259006f7b47efb10271ada76aec1')
|
|
version('2.40.5', commit='ed9ddafb0d620168ea8e3ab4884f3457b8525c68')
|
|
version('2.38.0', commit='16b997aba19a90a1c5fa64c442b1e7fcff99a658')
|
|
version('2.36.1', commit='5634e57e20199f9dc1f8b927eb3893143fc02f4f')
|
|
version('2.34.2', commit='a7030915fbc6120cc6812aefdedba423a207459b')
|
|
version('2.32.1', commit='f84d74424fa599f6d08f8db4612ca09914a9087f')
|
|
|
|
depends_on('r-xml', type=('build', 'run'))
|
|
depends_on('r-xml@3.99-0.7:', type=('build', 'run'), when='@2.52.0:')
|
|
depends_on('r-annotationdbi', type=('build', 'run'))
|
|
depends_on('r-progress', type=('build', 'run'), when='@2.34.2:')
|
|
depends_on('r-stringr', type=('build', 'run'), when='@2.34.2:')
|
|
depends_on('r-httr', type=('build', 'run'), when='@2.34.2:')
|
|
depends_on('r-digest', type=('build', 'run'), when='@2.50.3:')
|
|
depends_on('r-biocfilecache', type=('build', 'run'), when='@2.46.2:')
|
|
depends_on('r-rappdirs', type=('build', 'run'), when='@2.46.2:')
|
|
depends_on('r-xml2', type=('build', 'run'), when='@2.46.2:')
|
|
|
|
depends_on('r-rcurl', type=('build', 'run'), when='@:2.40.5')
|
|
depends_on('r-openssl', type=('build', 'run'), when='@2.46.2')
|