From 2a7027e2cc6351ff2955c445486f525537cd53ba Mon Sep 17 00:00:00 2001 From: Yifan Zhu Date: Mon, 30 Oct 2017 23:39:29 -0500 Subject: r-pcamethods: created new package (#6041) --- .../repos/builtin/packages/r-pcamethods/package.py | 48 ++++++++++++++++++++++ 1 file changed, 48 insertions(+) create mode 100644 var/spack/repos/builtin/packages/r-pcamethods/package.py diff --git a/var/spack/repos/builtin/packages/r-pcamethods/package.py b/var/spack/repos/builtin/packages/r-pcamethods/package.py new file mode 100644 index 0000000000..b068195662 --- /dev/null +++ b/var/spack/repos/builtin/packages/r-pcamethods/package.py @@ -0,0 +1,48 @@ +############################################################################## +# 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 RPcamethods(RPackage): + """Provides Bayesian PCA, Probabilistic PCA, Nipals PCA, Inverse + Non-Linear PCA and the conventional SVD PCA. A cluster based method for + missing value estimation is included for comparison. BPCA, PPCA and + NipalsPCA may be used to perform PCA on incomplete data as well as for + accurate missing value estimation. A set of methods for printing and + plotting the results is also provided. All PCA methods make use of the + same data structure (pcaRes) to provide a common interface to the PCA + results. Initiated at the Max-Planck Institute for Molecular Plant + Physiology, Golm, Germany.""" + + homepage = "http://bioconductor.org/packages/pcaMethods/" + url = "https://git.bioconductor.org/packages/pcaMethods" + list_url = homepage + version('1.68.0', git='https://git.bioconductor.org/packages/pcaMethods', commit='c8d7c93dcaf7ef728f3d089ae5d55771b320bdab') + + depends_on('r-biobase', type=('build', 'run')) + depends_on('r-biocgenerics', type=('build', 'run')) + depends_on('r-rcpp', type=('build', 'run')) + depends_on('r-mass', type=('build', 'run')) + depends_on('r@3.4.0:3.4.9', when='@1.68.0') -- cgit v1.2.3-70-g09d2