r-affxparser: Create new package. (#5641)

1 files changed, 42 insertions, 0 deletions

diff --git a/var/spack/repos/builtin/packages/r-affxparser/package.py b/var/spack/repos/builtin/packages/r-affxparser/package.py
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+++ b/var/spack/repos/builtin/packages/r-affxparser/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/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 RAffxparser(RPackage):
+    """Package for parsing Affymetrix files (CDF, CEL, CHP, BPMAP, BAR).
+    It provides methods for fast and memory efficient parsing of
+    Affymetrix files using the Affymetrix' Fusion SDK. Both ASCII-
+    and binary-based files are supported. Currently, there are methods
+    for reading chip definition file (CDF) and a cell intensity file (CEL).
+    These files can be read either in full or in part. For example,
+    probe signals from a few probesets can be extracted very quickly
+    from a set of CEL files into a convenient list structure."""
+
+    homepage = "https://www.bioconductor.org/packages/affxparser/"
+    url      = "https://www.bioconductor.org/packages/release/bioc/src/contrib/affxparser_1.48.0.tar.gz"
+    list_url = homepage
+
+    version('1.48.0', '20ae3f61e3ea25c3baeabf949b1f1165')