New package - r-multcomp
Simultaneous Inference in General Parametric Models.
This commit is contained in:
Glenn Johnson
parent
e04662f84f
commit
fc1804974c
51
var/spack/repos/builtin/packages/r-multcomp/package.py
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var/spack/repos/builtin/packages/r-multcomp/package.py
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##############################################################################
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# Copyright (c) 2013-2016, Lawrence Livermore National Security, LLC.
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# Produced at the Lawrence Livermore National Laboratory.
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#
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# This file is part of Spack.
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# Created by Todd Gamblin, tgamblin@llnl.gov, All rights reserved.
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# LLNL-CODE-647188
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#
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# For details, see https://github.com/llnl/spack
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# Please also see the LICENSE file for our notice and the LGPL.
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#
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# This program is free software; you can redistribute it and/or modify
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# it under the terms of the GNU Lesser General Public License (as
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# published by the Free Software Foundation) version 2.1, February 1999.
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#
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# This program is distributed in the hope that it will be useful, but
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# WITHOUT ANY WARRANTY; without even the IMPLIED WARRANTY OF
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# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the terms and
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# conditions of the GNU Lesser General Public License for more details.
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#
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# You should have received a copy of the GNU Lesser General Public
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# License along with this program; if not, write to the Free Software
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# Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
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##############################################################################
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from spack import *
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class RMultcomp(Package):
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"""Simultaneous tests and confidence intervals for general linear
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hypotheses in parametric models, including linear, generalized linear,
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linear mixed effects, and survival models. The package includes demos
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reproducing analyzes presented in the book "Multiple Comparisons Using R"
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(Bretz, Hothorn, Westfall, 2010, CRC Press)."""
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homepage = "http://multcomp.r-forge.r-project.org/"
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url = "https://cran.r-project.org/src/contrib/multcomp_1.4-6.tar.gz"
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list_url = "https://cran.r-project.org/src/contrib/Archive/multcomp"
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version('1.4-6', 'f1353ede2ed78b23859a7f1f1f9ebe88')
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extends('R')
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depends_on('r-mvtnorm', type=nolink)
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depends_on('r-survival', type=nolink)
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depends_on('r-thdata', type=nolink)
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depends_on('r-sandwich', type=nolink)
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depends_on('r-codetools', type=nolink)
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def install(self, spec, prefix):
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R('CMD', 'INSTALL', '--library={0}'.format(self.module.r_lib_dir),
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self.stage.source_path)
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42
var/spack/repos/builtin/packages/r-mvtnorm/package.py
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var/spack/repos/builtin/packages/r-mvtnorm/package.py
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##############################################################################
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# Copyright (c) 2013-2016, Lawrence Livermore National Security, LLC.
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# Produced at the Lawrence Livermore National Laboratory.
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#
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# This file is part of Spack.
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# Created by Todd Gamblin, tgamblin@llnl.gov, All rights reserved.
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# LLNL-CODE-647188
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#
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# For details, see https://github.com/llnl/spack
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# Please also see the LICENSE file for our notice and the LGPL.
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#
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# This program is free software; you can redistribute it and/or modify
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# it under the terms of the GNU Lesser General Public License (as
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# published by the Free Software Foundation) version 2.1, February 1999.
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#
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# This program is distributed in the hope that it will be useful, but
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# WITHOUT ANY WARRANTY; without even the IMPLIED WARRANTY OF
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# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the terms and
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# conditions of the GNU Lesser General Public License for more details.
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#
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# You should have received a copy of the GNU Lesser General Public
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# License along with this program; if not, write to the Free Software
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# Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
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##############################################################################
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from spack import *
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class RMvtnorm(Package):
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"""Computes multivariate normal and t probabilities, quantiles, random
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deviates and densities."""
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homepage = "http://mvtnorm.r-forge.r-project.org/"
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url = "https://cran.r-project.org/src/contrib/mvtnorm_1.0-5.tar.gz"
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list_url = "https://cran.r-project.org/src/contrib/Archive/mvtnorm"
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version('1.0-5', '5894dd3969bbfa26f4862c45f9a48a52')
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extends('R')
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def install(self, spec, prefix):
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R('CMD', 'INSTALL', '--library={0}'.format(self.module.r_lib_dir),
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self.stage.source_path)
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44
var/spack/repos/builtin/packages/r-sandwich/package.py
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44
var/spack/repos/builtin/packages/r-sandwich/package.py
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##############################################################################
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# Copyright (c) 2013-2016, Lawrence Livermore National Security, LLC.
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# Produced at the Lawrence Livermore National Laboratory.
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#
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# This file is part of Spack.
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# Created by Todd Gamblin, tgamblin@llnl.gov, All rights reserved.
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# LLNL-CODE-647188
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#
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# For details, see https://github.com/llnl/spack
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# Please also see the LICENSE file for our notice and the LGPL.
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#
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# This program is free software; you can redistribute it and/or modify
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# it under the terms of the GNU Lesser General Public License (as
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# published by the Free Software Foundation) version 2.1, February 1999.
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#
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# This program is distributed in the hope that it will be useful, but
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# WITHOUT ANY WARRANTY; without even the IMPLIED WARRANTY OF
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# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the terms and
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# conditions of the GNU Lesser General Public License for more details.
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#
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# You should have received a copy of the GNU Lesser General Public
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# License along with this program; if not, write to the Free Software
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# Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
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##############################################################################
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from spack import *
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class RSandwich(Package):
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"""Model-robust standard error estimators for cross-sectional, time series,
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and longitudinal data."""
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homepage = "https://cran.r-project.org/package=sandwich"
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url = "https://cran.r-project.org/src/contrib/sandwich_2.3-4.tar.gz"
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list_url = "https://cran.r-project.org/src/contrib/Archive/sandwich"
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version('2.3-4', 'a621dbd8a57b6e1e036496642aadc2e5')
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extends('R')
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depends_on('r-zoo', type=nolink)
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def install(self, spec, prefix):
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R('CMD', 'INSTALL', '--library={0}'.format(self.module.r_lib_dir),
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self.stage.source_path)
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45
var/spack/repos/builtin/packages/r-survival/package.py
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45
var/spack/repos/builtin/packages/r-survival/package.py
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##############################################################################
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# Copyright (c) 2013-2016, Lawrence Livermore National Security, LLC.
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# Produced at the Lawrence Livermore National Laboratory.
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#
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# This file is part of Spack.
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# Created by Todd Gamblin, tgamblin@llnl.gov, All rights reserved.
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# LLNL-CODE-647188
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#
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# For details, see https://github.com/llnl/spack
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# Please also see the LICENSE file for our notice and the LGPL.
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#
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# This program is free software; you can redistribute it and/or modify
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# it under the terms of the GNU Lesser General Public License (as
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# published by the Free Software Foundation) version 2.1, February 1999.
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#
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# This program is distributed in the hope that it will be useful, but
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# WITHOUT ANY WARRANTY; without even the IMPLIED WARRANTY OF
|
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# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the terms and
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# conditions of the GNU Lesser General Public License for more details.
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#
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# You should have received a copy of the GNU Lesser General Public
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# License along with this program; if not, write to the Free Software
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# Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
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##############################################################################
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from spack import *
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class RSurvival(Package):
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"""Contains the core survival analysis routines, including definition of
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Surv objects, Kaplan-Meier and Aalen-Johansen (multi-state) curves, Cox
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models, and parametric accelerated failure time models."""
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homepage = "https://cran.r-project.org/package=survival"
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url = "https://cran.r-project.org/src/contrib/survival_2.39-5.tar.gz"
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list_url = "https://cran.r-project.org/src/contrib/Archive/survival"
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version('2.39-5', 'a3cc6b5762e8c5c0bb9e64a276710be2')
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extends('R')
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depends_on('r-matrix', type=nolink)
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def install(self, spec, prefix):
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R('CMD', 'INSTALL', '--library={0}'.format(self.module.r_lib_dir),
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self.stage.source_path)
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44
var/spack/repos/builtin/packages/r-thdata/package.py
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44
var/spack/repos/builtin/packages/r-thdata/package.py
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@ -0,0 +1,44 @@
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##############################################################################
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# Copyright (c) 2013-2016, Lawrence Livermore National Security, LLC.
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# Produced at the Lawrence Livermore National Laboratory.
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#
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# This file is part of Spack.
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# Created by Todd Gamblin, tgamblin@llnl.gov, All rights reserved.
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# LLNL-CODE-647188
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#
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# For details, see https://github.com/llnl/spack
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# Please also see the LICENSE file for our notice and the LGPL.
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#
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# This program is free software; you can redistribute it and/or modify
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# it under the terms of the GNU Lesser General Public License (as
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# published by the Free Software Foundation) version 2.1, February 1999.
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#
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# This program is distributed in the hope that it will be useful, but
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# WITHOUT ANY WARRANTY; without even the IMPLIED WARRANTY OF
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# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the terms and
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# conditions of the GNU Lesser General Public License for more details.
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#
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# You should have received a copy of the GNU Lesser General Public
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# License along with this program; if not, write to the Free Software
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# Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
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##############################################################################
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from spack import *
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class RThdata(Package):
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"""Contains data sets used in other packages Torsten Hothorn maintains."""
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homepage = "https://cran.r-project.org/package=TH.data"
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url = "https://cran.r-project.org/src/contrib/TH.data_1.0-7.tar.gz"
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list_url = "https://cran.r-project.org/src/contrib/Archive/TH.data"
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version('1.0-7', '3e8b6b1a4699544f175215aed7039a94')
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extends('R')
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depends_on('r-survival', type=nolink)
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depends_on('r-mass', type=nolink)
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def install(self, spec, prefix):
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R('CMD', 'INSTALL', '--library={0}'.format(self.module.r_lib_dir),
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self.stage.source_path)
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