r-tfmpvalue: new package (#7230)

1 files changed, 43 insertions, 0 deletions

diff --git a/var/spack/repos/builtin/packages/r-tfmpvalue/package.py b/var/spack/repos/builtin/packages/r-tfmpvalue/package.py
new file mode 100644
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+++ b/var/spack/repos/builtin/packages/r-tfmpvalue/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 RTfmpvalue(RPackage):
+    """In putative Transcription Factor Binding Sites (TFBSs) identification
+       from sequence/alignments, we are interested in the significance of
+       certain match score. TFMPvalue provides the accurate calculation of
+       P-value with score threshold for Position Weight Matrices, or the score
+       with given P-value. This package is an interface to code originally
+       made available by Helene Touzet and Jean-Stephane Varre, 2007,
+       Algorithms Mol Biol:2, 15."""
+
+    homepage = "https://github.com/ge11232002/TFMPvalue"
+    url      = "https://cran.rstudio.com/src/contrib/TFMPvalue_0.0.6.tar.gz"
+    list_url = "https://cran.rstudio.com/src/contrib/Archive/TFMPvalue"
+
+    version('0.0.6', '69fdf4f9b9a0f408a5cee9ce34bea261')
+
+    depends_on('r-rcpp@0.11.1:', type=('build', 'run'))