r-maldiquant: created new package (#6188)

1 files changed, 46 insertions, 0 deletions

diff --git a/var/spack/repos/builtin/packages/r-maldiquant/package.py b/var/spack/repos/builtin/packages/r-maldiquant/package.py
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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/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 RMaldiquant(RPackage):
+    """A complete analysis pipeline for matrix-assisted laser
+       desorption/ionization-time-of-flight (MALDI-TOF) and other
+       two-dimensional mass spectrometry data. In addition to commonly used
+       plotting and processing methods it includes distinctive features,
+       namely baseline subtraction methods such as morphological filters
+       (TopHat) or the statistics-sensitive non-linear iterative peak-clipping
+       algorithm (SNIP), peak alignment using warping functions, handling of
+       replicated measurements as well as allowing spectra with different
+       resolutions."""
+
+    homepage = "https://cran.r-project.org/package=MALDIquant"
+    url      = "https://cran.r-project.org/src/contrib/MALDIquant_1.16.4.tar.gz"
+    list_url = "https://cran.r-project.org/src/contrib/Archive/MALDIquant"
+
+    version('1.16.4', '83200e7496d05c5a99292e45d2b11c67')
+
+    depends_on('r-knitr', type=('build', 'run'))
+    depends_on('r-testthat', type=('build', 'run'))