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-rw-r--r--var/spack/repos/builtin/packages/r-gdata/package.py59
-rw-r--r--var/spack/repos/builtin/packages/r-gtools/package.py60
2 files changed, 119 insertions, 0 deletions
diff --git a/var/spack/repos/builtin/packages/r-gdata/package.py b/var/spack/repos/builtin/packages/r-gdata/package.py
new file mode 100644
index 0000000000..0a09a1145b
--- /dev/null
+++ b/var/spack/repos/builtin/packages/r-gdata/package.py
@@ -0,0 +1,59 @@
+##############################################################################
+# 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 RGdata(Package):
+ """Various R programming tools for data manipulation, including: - medical
+ unit conversions ('ConvertMedUnits', 'MedUnits'), - combining objects
+ ('bindData', 'cbindX', 'combine', 'interleave'), - character vector
+ operations ('centerText', 'startsWith', 'trim'), - factor manipulation
+ ('levels', 'reorder.factor', 'mapLevels'), - obtaining information about R
+ objects ('object.size', 'elem', 'env', 'humanReadable', 'is.what', 'll',
+ 'keep', 'ls.funs', 'Args','nPairs', 'nobs'), - manipulating MS-Excel
+ formatted files ('read.xls', 'installXLSXsupport', 'sheetCount',
+ 'xlsFormats'), - generating fixed-width format files ('write.fwf'), -
+ extricating components of date & time objects ('getYear', 'getMonth',
+ 'getDay', 'getHour', 'getMin', 'getSec'), - operations on columns of data
+ frames ('matchcols', 'rename.vars'), - matrix operations ('unmatrix',
+ 'upperTriangle', 'lowerTriangle'), - operations on vectors ('case',
+ 'unknownToNA', 'duplicated2', 'trimSum'), - operations on data frames
+ ('frameApply', 'wideByFactor'), - value of last evaluated expression
+ ('ans'), and - wrapper for 'sample' that ensures consistent behavior for
+ both scalar and vector arguments ('resample')."""
+
+ homepage = "https://cran.r-project.org/package=gdata"
+ url = "https://cran.r-project.org/src/contrib/gdata_2.17.0.tar.gz"
+ list_url = "https://cran.r-project.org/src/contrib/Archive/gdata"
+
+ version('2.17.0', 'c716b663b9dc16ad8cafe6acc781a75f')
+
+ extends('R')
+
+ depends_on('r-gtools', type=nolink)
+
+ def install(self, spec, prefix):
+ R('CMD', 'INSTALL', '--library={0}'.format(self.module.r_lib_dir),
+ self.stage.source_path)
diff --git a/var/spack/repos/builtin/packages/r-gtools/package.py b/var/spack/repos/builtin/packages/r-gtools/package.py
new file mode 100644
index 0000000000..367bb30f87
--- /dev/null
+++ b/var/spack/repos/builtin/packages/r-gtools/package.py
@@ -0,0 +1,60 @@
+##############################################################################
+# 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 RGtools(Package):
+ """Functions to assist in R programming, including: - assist in developing,
+ updating, and maintaining R and R packages ('ask', 'checkRVersion',
+ 'getDependencies', 'keywords', 'scat'), - calculate the logit and inverse
+ logit transformations ('logit', 'inv.logit'), - test if a value is missing,
+ empty or contains only NA and NULL values ('invalid'), - manipulate R's
+ .Last function ('addLast'), - define macros ('defmacro'), - detect odd and
+ even integers ('odd', 'even'), - convert strings containing non-ASCII
+ characters (like single quotes) to plain ASCII ('ASCIIfy'), - perform a
+ binary search ('binsearch'), - sort strings containing both numeric and
+ character components ('mixedsort'), - create a factor variable from the
+ quantiles of a continuous variable ('quantcut'), - enumerate permutations
+ and combinations ('combinations', 'permutation'), - calculate and convert
+ between fold-change and log-ratio ('foldchange', 'logratio2foldchange',
+ 'foldchange2logratio'), - calculate probabilities and generate random
+ numbers from Dirichlet distributions ('rdirichlet', 'ddirichlet'), - apply
+ a function over adjacent subsets of a vector ('running'), - modify the
+ TCP\_NODELAY ('de-Nagle') flag for socket objects, - efficient 'rbind' of
+ data frames, even if the column names don't match ('smartbind'), - generate
+ significance stars from p-values ('stars.pval'), - convert characters
+ to/from ASCII codes."""
+
+ homepage = "https://cran.r-project.org/package=gtools"
+ url = "https://cran.r-project.org/src/contrib/gtools_3.5.0.tar.gz"
+ list_url = "https://cran.r-project.org/src/contrib/Archive/gtools"
+
+ version('3.5.0', '45f8800c0336d35046641fbacc56bdbb')
+
+ extends('R')
+
+ def install(self, spec, prefix):
+ R('CMD', 'INSTALL', '--library={0}'.format(self.module.r_lib_dir),
+ self.stage.source_path)