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author | lingnanyuan <1297162327@qq.com> | 2017-11-18 13:54:14 -0600 |
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committer | Christoph Junghans <christoph.junghans@gmail.com> | 2017-11-18 12:54:14 -0700 |
commit | cf3df2a321762bff061715742144900ca08cdd79 (patch) | |
tree | 9e85f50d030c55c60eebb8c8d3603cff7daeac61 | |
parent | 20092adb944615b96e4265d5d23627f91b2d5c58 (diff) | |
download | spack-cf3df2a321762bff061715742144900ca08cdd79.tar.gz spack-cf3df2a321762bff061715742144900ca08cdd79.tar.bz2 spack-cf3df2a321762bff061715742144900ca08cdd79.tar.xz spack-cf3df2a321762bff061715742144900ca08cdd79.zip |
r-dose: Create new package. (#6355)
-rw-r--r-- | var/spack/repos/builtin/packages/r-dose/package.py | 52 |
1 files changed, 52 insertions, 0 deletions
diff --git a/var/spack/repos/builtin/packages/r-dose/package.py b/var/spack/repos/builtin/packages/r-dose/package.py new file mode 100644 index 0000000000..354120079d --- /dev/null +++ b/var/spack/repos/builtin/packages/r-dose/package.py @@ -0,0 +1,52 @@ +############################################################################## +# 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/spack/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 RDose(RPackage): + """This package implements five methods proposed by Resnik, Schlicker, + Jiang, Lin and Wang respectively for measuring semantic similarities + among DO terms and gene products. Enrichment analyses including + hypergeometric model and gene set enrichment analysis are also + implemented for discovering disease associations of high-throughput + biological data.""" + + homepage = "https://www.bioconductor.org/packages/DOSE/" + url = "https://git.bioconductor.org/packages/DOSE" + + version('3.2.0', git='https://git.bioconductor.org/packages/DOSE', commit='71f563fc39d02dfdf65184c94e0890a63b96b86b') + + depends_on('r@3.4.0:3.4.9', when='@3.2.0') + depends_on('r-scales', type=('build', 'run')) + depends_on('r-s4vectors', type=('build', 'run')) + depends_on('r-reshape2', type=('build', 'run')) + depends_on('r-qvalue', type=('build', 'run')) + depends_on('r-igraph', type=('build', 'run')) + depends_on('r-gosemsim', type=('build', 'run')) + depends_on('r-ggplot2', type=('build', 'run')) + depends_on('r-fgsea', type=('build', 'run')) + depends_on('r-do-db', type=('build', 'run')) + depends_on('r-biocparallel', type=('build', 'run')) + depends_on('r-annotationdbi', type=('build', 'run')) |