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r-affycoretools: Create new package and its dependency r-ff. (#6082)

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* r-ff: Create new package

* r-affycoretools: Create new package.

* r-ff: update url.
This commit is contained in:
lingnanyuan 2017-11-01 18:04:17 -05:00 committed by Christoph Junghans
parent 541818ed06
commit a05cca49d8
2 changed files with 92 additions and 0 deletions
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var/spack/repos/builtin/packages/r-affycoretools/package.py Normal file
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##############################################################################
# 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 RAffycoretools(RPackage):
"""Various wrapper functions that have been written to streamline
the more common analyses that a core Biostatistician might see."""
homepage = "https://www.bioconductor.org/packages/affycoretools/"
url = "https://git.bioconductor.org/packages/affycoretools"
version('1.48.0', git='https://git.bioconductor.org/packages/affycoretools', commit='e0d52e34eead1ac45d3e60c59efd940e4889eb99')
depends_on('r@3.4.0:3.4.9', when='@1.48.0')
depends_on('r-biobase', type=('build', 'run'))
depends_on('r-affy', type=('build', 'run'))
depends_on('r-limma', type=('build', 'run'))
depends_on('r-gostats', type=('build', 'run'))
depends_on('r-gcrma', type=('build', 'run'))
depends_on('r-xtable', type=('build', 'run'))
depends_on('r-annotationdbi', type=('build', 'run'))
depends_on('r-ggplot2', type=('build', 'run'))
depends_on('r-gplots', type=('build', 'run'))
depends_on('r-oligoclasses', type=('build', 'run'))
depends_on('r-reportingtools', type=('build', 'run'))
depends_on('r-hwriter', type=('build', 'run'))
depends_on('r-lattice', type=('build', 'run'))
depends_on('r-s4vectors', type=('build', 'run'))
depends_on('r-edger', type=('build', 'run'))
depends_on('r-rsqlite', type=('build', 'run'))
depends_on('r-biocgenerics', type=('build', 'run'))

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var/spack/repos/builtin/packages/r-ff/package.py Normal file
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##############################################################################
# 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 RFf(RPackage):
"""memory-efficient storage of large data on disk and
fast access functions."""
homepage = "http://ff.r-forge.r-project.org/"
url = "https://cran.rstudio.com/src/contrib/ff_2.2-13.tar.gz"
list_url = "https://cran.r-project.org/src/contrib/Archive/ff"
version('2.2-13', '4adf8840d24cb6e2927a3ef885c86fcd')
depends_on('r-bit', type=('build', 'run'))