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Diffstat (limited to 'var/spack/repos/builtin/packages/r-adegenet/package.py')
| -rw-r--r-- | var/spack/repos/builtin/packages/r-adegenet/package.py | 55 |
1 files changed, 55 insertions, 0 deletions
diff --git a/var/spack/repos/builtin/packages/r-adegenet/package.py b/var/spack/repos/builtin/packages/r-adegenet/package.py new file mode 100644 index 0000000000..368d546e1d --- /dev/null +++ b/var/spack/repos/builtin/packages/r-adegenet/package.py @@ -0,0 +1,55 @@ +############################################################################## +# Copyright (c) 2013-2016, 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 LICENSE file 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 RAdegenet(RPackage): + """Toolset for the exploration of genetic and genomic data. Adegenet + provides formal (S4) classes for storing and handling various genetic + data, including genetic markers with varying ploidy and hierarchical + population structure ('genind' class), alleles counts by populations + ('genpop'), and genome-wide SNP data ('genlight'). It also implements + original multivariate methods (DAPC, sPCA), graphics, statistical tests, + simulation tools, distance and similarity measures, and several spatial + methods. A range of both empirical and simulated datasets is also provided + to illustrate various methods.""" + + homepage = "https://github.com/thibautjombart/adegenet/wiki" + url = "https://cran.r-project.org/src/contrib/adegenet_2.0.1.tar.gz" + list_url = "https://cran.r-project.org/src/contrib/Archive/adegenet" + + version('2.0.1', 'ecb1220ce7c9affaba2987bc7f38adda') + + depends_on('r@2.14:') + depends_on('r-ade4', type=('build', 'run')) + depends_on('r-igraph', type=('build', 'run')) + depends_on('r-ape', type=('build', 'run')) + depends_on('r-shiny', type=('build', 'run')) + depends_on('r-ggplot2', type=('build', 'run')) + depends_on('r-seqinr', type=('build', 'run')) + depends_on('r-spdep', type=('build', 'run')) + depends_on('r-reshape2', type=('build', 'run')) + depends_on('r-dplyr@0.4.1:', type=('build', 'run')) + depends_on('r-vegan', type=('build', 'run')) |