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authorGlenn Johnson <glenn-johnson@uiowa.edu>2016-07-30 15:10:25 -0500
committerGlenn Johnson <glenn-johnson@uiowa.edu>2016-07-30 15:10:25 -0500
commitee7acc6b1337366c91261c3d76ad3750dd6409f0 (patch)
tree3647ce91b15d5070d1119fd2a6865d5ab944bb44
parente04662f84ff9fdf30221f0a50d566eb5ded0f20c (diff)
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New package r-car
Companion to Applied Regression.
-rw-r--r--var/spack/repos/builtin/packages/r-car/package.py48
-rw-r--r--var/spack/repos/builtin/packages/r-lme4/package.py53
-rw-r--r--var/spack/repos/builtin/packages/r-matrixmodels/package.py44
-rw-r--r--var/spack/repos/builtin/packages/r-mgcv/package.py47
-rw-r--r--var/spack/repos/builtin/packages/r-minqa/package.py44
-rw-r--r--var/spack/repos/builtin/packages/r-nlme/package.py43
-rw-r--r--var/spack/repos/builtin/packages/r-nloptr/package.py47
-rw-r--r--var/spack/repos/builtin/packages/r-nnet/package.py42
-rw-r--r--var/spack/repos/builtin/packages/r-pbkrtest/package.py49
-rw-r--r--var/spack/repos/builtin/packages/r-quantreg/package.py50
-rw-r--r--var/spack/repos/builtin/packages/r-sparsem/package.py43
11 files changed, 510 insertions, 0 deletions
diff --git a/var/spack/repos/builtin/packages/r-car/package.py b/var/spack/repos/builtin/packages/r-car/package.py
new file mode 100644
index 0000000000..f4a3824983
--- /dev/null
+++ b/var/spack/repos/builtin/packages/r-car/package.py
@@ -0,0 +1,48 @@
+##############################################################################
+# 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 RCar(Package):
+ """Functions and Datasets to Accompany J. Fox and S. Weisberg, An R
+ Companion to Applied Regression, Second Edition, Sage, 2011."""
+
+ homepage = "https://r-forge.r-project.org/projects/car/"
+ url = "https://cran.r-project.org/src/contrib/car_2.1-2.tar.gz"
+ list_url = "https://cran.r-project.org/src/contrib/Archive/car"
+
+ version('2.1-2', '0f78ad74ef7130126d319acec23951a0')
+
+ extends('R')
+
+ depends_on('r-mass', type=nolink)
+ depends_on('r-mgcv', type=nolink)
+ depends_on('r-nnet', type=nolink)
+ depends_on('r-pbkrtest', type=nolink)
+ depends_on('r-quantreg', 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-lme4/package.py b/var/spack/repos/builtin/packages/r-lme4/package.py
new file mode 100644
index 0000000000..c52d9d0e27
--- /dev/null
+++ b/var/spack/repos/builtin/packages/r-lme4/package.py
@@ -0,0 +1,53 @@
+##############################################################################
+# 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 RLme4(Package):
+ """Fit linear and generalized linear mixed-effects models. The models and
+ their components are represented using S4 classes and methods. The core
+ computational algorithms are implemented using the 'Eigen' C++ library for
+ numerical linear algebra and 'RcppEigen' "glue"."""
+
+ homepage = "https://github.com/lme4/lme4/"
+ url = "https://cran.r-project.org/src/contrib/lme4_1.1-12.tar.gz"
+ list_url = "https://cran.r-project.org/src/contrib/Archive/lme4"
+
+ version('1.1-12', 'da8aaebb67477ecb5631851c46207804')
+
+ extends('R')
+
+ depends_on('r-matrix', type=nolink)
+ depends_on('r-mass', type=nolink)
+ depends_on('r-lattice', type=nolink)
+ depends_on('r-nlme', type=nolink)
+ depends_on('r-minqa', type=nolink)
+ depends_on('r-nloptr', type=nolink)
+ depends_on('r-rcpp', type=nolink)
+ depends_on('r-rcppeigen', 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-matrixmodels/package.py b/var/spack/repos/builtin/packages/r-matrixmodels/package.py
new file mode 100644
index 0000000000..3cdce6fea6
--- /dev/null
+++ b/var/spack/repos/builtin/packages/r-matrixmodels/package.py
@@ -0,0 +1,44 @@
+##############################################################################
+# 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 RMatrixmodels(Package):
+ """Modelling with sparse and dense 'Matrix' matrices, using modular
+ prediction and response module classes."""
+
+ homepage = "http://matrix.r-forge.r-project.org/"
+ url = "https://cran.r-project.org/src/contrib/MatrixModels_0.4-1.tar.gz"
+ list_url = "https://cran.r-project.org/src/contrib/Archive/MatrixModels"
+
+ version('0.4-1', '65b3ab56650c62bf1046a3eb1f1e19a0')
+
+ extends('R')
+
+ depends_on('r-matrix', 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-mgcv/package.py b/var/spack/repos/builtin/packages/r-mgcv/package.py
new file mode 100644
index 0000000000..4c49462ba2
--- /dev/null
+++ b/var/spack/repos/builtin/packages/r-mgcv/package.py
@@ -0,0 +1,47 @@
+##############################################################################
+# 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 RMgcv(Package):
+ """GAMs, GAMMs and other generalized ridge regression with multiple
+ smoothing parameter estimation by GCV, REML or UBRE/AIC. Includes a gam()
+ function, a wide variety of smoothers, JAGS support and distributions
+ beyond the exponential family."""
+
+ homepage = "https://cran.r-project.org/package=mgcv"
+ url = "https://cran.r-project.org/src/contrib/mgcv_1.8-13.tar.gz"
+ list_url = "https://cran.r-project.org/src/contrib/Archive/mgcv"
+
+ version('1.8-13', '30607be3aaf44b13bd8c81fc32e8c984')
+
+ extends('R')
+
+ depends_on('r-nlme', type=nolink)
+ depends_on('r-matrix', 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-minqa/package.py b/var/spack/repos/builtin/packages/r-minqa/package.py
new file mode 100644
index 0000000000..16cff20b41
--- /dev/null
+++ b/var/spack/repos/builtin/packages/r-minqa/package.py
@@ -0,0 +1,44 @@
+##############################################################################
+# 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 RMinqa(Package):
+ """Derivative-free optimization by quadratic approximation based on an
+ interface to Fortran implementations by M. J. D. Powell."""
+
+ homepage = "http://optimizer.r-forge.r-project.org/"
+ url = "https://cran.r-project.org/src/contrib/minqa_1.2.4.tar.gz"
+ list_url = "https://cran.r-project.org/src/contrib/Archive/minqa"
+
+ version('1.2.4', 'bcaae4fdba60a33528f2116e2fd51105')
+
+ extends('R')
+
+ depends_on('r-rcpp', 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-nlme/package.py b/var/spack/repos/builtin/packages/r-nlme/package.py
new file mode 100644
index 0000000000..1b6bb114e1
--- /dev/null
+++ b/var/spack/repos/builtin/packages/r-nlme/package.py
@@ -0,0 +1,43 @@
+##############################################################################
+# 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 RNlme(Package):
+ """Fit and compare Gaussian linear and nonlinear mixed-effects models."""
+
+ homepage = "https://cran.r-project.org/package=nlme"
+ url = "https://cran.r-project.org/src/contrib/nlme_3.1-128.tar.gz"
+ list_url = "https://cran.r-project.org/src/contrib/Archive/nlme"
+
+ version('3.1-128', '3d75ae7380bf123761b95a073eb55008')
+
+ extends('R')
+
+ depends_on('r-lattice', 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-nloptr/package.py b/var/spack/repos/builtin/packages/r-nloptr/package.py
new file mode 100644
index 0000000000..58cb585c49
--- /dev/null
+++ b/var/spack/repos/builtin/packages/r-nloptr/package.py
@@ -0,0 +1,47 @@
+##############################################################################
+# 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 RNloptr(Package):
+ """nloptr is an R interface to NLopt. NLopt is a free/open-source library
+ for nonlinear optimization, providing a common interface for a number of
+ different free optimization routines available online as well as original
+ implementations of various other algorithms. See
+ http://ab-initio.mit.edu/wiki/index.php/NLopt_Introduction for more
+ information on the available algorithms. During installation on Unix the
+ NLopt code is downloaded and compiled from the NLopt website."""
+
+ homepage = "https://cran.r-project.org/package=nloptr"
+ url = "https://cran.r-project.org/src/contrib/nloptr_1.0.4.tar.gz"
+ list_url = "https://cran.r-project.org/src/contrib/Archive/nloptr"
+
+ version('1.0.4', '9af69a613349b236fd377d0a107f484c')
+
+ extends('R')
+
+ 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-nnet/package.py b/var/spack/repos/builtin/packages/r-nnet/package.py
new file mode 100644
index 0000000000..be048f5ad0
--- /dev/null
+++ b/var/spack/repos/builtin/packages/r-nnet/package.py
@@ -0,0 +1,42 @@
+##############################################################################
+# 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 RNnet(Package):
+ """Software for feed-forward neural networks with a single hidden layer,
+ and for multinomial log-linear models."""
+
+ homepage = "http://www.stats.ox.ac.uk/pub/MASS4/"
+ url = "https://cran.r-project.org/src/contrib/nnet_7.3-12.tar.gz"
+ list_url = "https://cran.r-project.org/src/contrib/Archive/nnet"
+
+ version('7.3-12', 'dc7c6f0d0de53d8fc72b44554400a74e')
+
+ extends('R')
+
+ 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-pbkrtest/package.py b/var/spack/repos/builtin/packages/r-pbkrtest/package.py
new file mode 100644
index 0000000000..40b6f96927
--- /dev/null
+++ b/var/spack/repos/builtin/packages/r-pbkrtest/package.py
@@ -0,0 +1,49 @@
+##############################################################################
+# 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 RPbkrtest(Package):
+ """Test in mixed effects models. Attention is on mixed effects models as
+ implemented in the 'lme4' package. This package implements a parametric
+ bootstrap test and a Kenward Roger modification of F-tests for linear mixed
+ effects models and a parametric bootstrap test for generalized linear mixed
+ models."""
+
+ homepage = "http://people.math.aau.dk/~sorenh/software/pbkrtest/"
+ url = "https://cran.r-project.org/src/contrib/pbkrtest_0.4-6.tar.gz"
+ list_url = "https://cran.r-project.org/src/contrib/Archive/pbkrtest"
+
+ version('0.4-6', '0a7d9ff83b8d131af9b2335f35781ef9')
+
+ extends('R')
+
+ depends_on('r-lme4', type=nolink)
+ depends_on('r-matrix', type=nolink)
+ depends_on('r-mass', 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-quantreg/package.py b/var/spack/repos/builtin/packages/r-quantreg/package.py
new file mode 100644
index 0000000000..89a26070ba
--- /dev/null
+++ b/var/spack/repos/builtin/packages/r-quantreg/package.py
@@ -0,0 +1,50 @@
+##############################################################################
+# 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 RQuantreg(Package):
+ """Estimation and inference methods for models of conditional quantiles:
+ Linear and nonlinear parametric and non-parametric (total variation
+ penalized) models for conditional quantiles of a univariate response
+ and several methods for handling censored survival data. Portfolio
+ selection methods based on expected shortfall risk are also
+ included."""
+
+ homepage = "https://cran.r-project.org/package=quantreg"
+ url = "https://cran.r-project.org/src/contrib/quantreg_5.26.tar.gz"
+ list_url = "https://cran.r-project.org/src/contrib/Archive/quantreg"
+
+ version('5.26', '1d89ed932fb4d67ae2d5da0eb8c2989f')
+
+ extends('R')
+
+ depends_on('r-sparsem', type=nolink)
+ depends_on('r-matrix', type=nolink)
+ depends_on('r-matrixmodels', 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-sparsem/package.py b/var/spack/repos/builtin/packages/r-sparsem/package.py
new file mode 100644
index 0000000000..c4dabf5c15
--- /dev/null
+++ b/var/spack/repos/builtin/packages/r-sparsem/package.py
@@ -0,0 +1,43 @@
+##############################################################################
+# 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 RSparsem(Package):
+ """Some basic linear algebra functionality for sparse matrices is provided:
+ including Cholesky decomposition and backsolving as well as standard R
+ subsetting and Kronecker products."""
+
+ homepage = "http://www.econ.uiuc.edu/~roger/research/sparse/sparse.html"
+ url = "https://cran.r-project.org/src/contrib/SparseM_1.7.tar.gz"
+ list_url = "https://cran.r-project.org/src/contrib/Archive/SparseM"
+
+ version('1.7', '7b5b0ab166a0929ef6dcfe1d97643601')
+
+ extends('R')
+
+ def install(self, spec, prefix):
+ R('CMD', 'INSTALL', '--library={0}'.format(self.module.r_lib_dir),
+ self.stage.source_path)