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-rw-r--r--var/spack/repos/builtin/packages/r-base64enc/package.py42
-rw-r--r--var/spack/repos/builtin/packages/r-cluster/package.py43
-rw-r--r--var/spack/repos/builtin/packages/r-codetools/package.py41
-rw-r--r--var/spack/repos/builtin/packages/r-devtools/package.py16
-rw-r--r--var/spack/repos/builtin/packages/r-diagrammer/package.py49
-rw-r--r--var/spack/repos/builtin/packages/r-doparallel/package.py45
-rw-r--r--var/spack/repos/builtin/packages/r-dplyr/package.py17
-rw-r--r--var/spack/repos/builtin/packages/r-dt/package.py47
-rw-r--r--var/spack/repos/builtin/packages/r-dygraphs/package.py50
-rw-r--r--var/spack/repos/builtin/packages/r-foreach/package.py50
-rw-r--r--var/spack/repos/builtin/packages/r-ggplot2/package.py12
-rw-r--r--var/spack/repos/builtin/packages/r-ggvis/package.py14
-rw-r--r--var/spack/repos/builtin/packages/r-googlevis/package.py47
-rw-r--r--var/spack/repos/builtin/packages/r-gridbase/package.py41
-rw-r--r--var/spack/repos/builtin/packages/r-gridextra/package.py2
-rw-r--r--var/spack/repos/builtin/packages/r-htmltools/package.py4
-rw-r--r--var/spack/repos/builtin/packages/r-htmlwidgets/package.py47
-rw-r--r--var/spack/repos/builtin/packages/r-httpuv/package.py2
-rw-r--r--var/spack/repos/builtin/packages/r-httr/package.py10
-rw-r--r--var/spack/repos/builtin/packages/r-igraph/package.py50
-rw-r--r--var/spack/repos/builtin/packages/r-influencer/package.py50
-rw-r--r--var/spack/repos/builtin/packages/r-irlba/package.py45
-rw-r--r--var/spack/repos/builtin/packages/r-iterators/package.py42
-rw-r--r--var/spack/repos/builtin/packages/r-leaflet/package.py54
-rw-r--r--var/spack/repos/builtin/packages/r-lubridate/package.py3
-rw-r--r--var/spack/repos/builtin/packages/r-magic/package.py2
-rw-r--r--var/spack/repos/builtin/packages/r-markdown/package.py47
-rw-r--r--var/spack/repos/builtin/packages/r-matrix/package.py2
-rw-r--r--var/spack/repos/builtin/packages/r-memoise/package.py2
-rw-r--r--var/spack/repos/builtin/packages/r-munsell/package.py2
-rw-r--r--var/spack/repos/builtin/packages/r-networkd3/package.py46
-rw-r--r--var/spack/repos/builtin/packages/r-nmf/package.py60
-rw-r--r--var/spack/repos/builtin/packages/r-pkgmaker/package.py53
-rw-r--r--var/spack/repos/builtin/packages/r-plyr/package.py2
-rw-r--r--var/spack/repos/builtin/packages/r-png/package.py45
-rw-r--r--var/spack/repos/builtin/packages/r-raster/package.py46
-rw-r--r--var/spack/repos/builtin/packages/r-rcppeigen/package.py4
-rw-r--r--var/spack/repos/builtin/packages/r-registry/package.py41
-rw-r--r--var/spack/repos/builtin/packages/r-reshape2/package.py6
-rw-r--r--var/spack/repos/builtin/packages/r-rmysql/package.py2
-rw-r--r--var/spack/repos/builtin/packages/r-rngtools/package.py49
-rw-r--r--var/spack/repos/builtin/packages/r-rpostgresql/package.py2
-rw-r--r--var/spack/repos/builtin/packages/r-rsqlite/package.py2
-rw-r--r--var/spack/repos/builtin/packages/r-rstan/package.py14
-rw-r--r--var/spack/repos/builtin/packages/r-rstudioapi/package.py1
-rw-r--r--var/spack/repos/builtin/packages/r-scales/package.py12
-rw-r--r--var/spack/repos/builtin/packages/r-shiny/package.py14
-rw-r--r--var/spack/repos/builtin/packages/r-sp/package.py46
-rw-r--r--var/spack/repos/builtin/packages/r-stringr/package.py4
-rw-r--r--var/spack/repos/builtin/packages/r-threejs/package.py47
-rw-r--r--var/spack/repos/builtin/packages/r-tibble/package.py6
-rw-r--r--var/spack/repos/builtin/packages/r-tidyr/package.py12
-rw-r--r--var/spack/repos/builtin/packages/r-visnetwork/package.py47
-rw-r--r--var/spack/repos/builtin/packages/r-xlconnect/package.py8
-rw-r--r--var/spack/repos/builtin/packages/r-xlconnectjars/package.py6
-rw-r--r--var/spack/repos/builtin/packages/r-xlsx/package.py4
-rw-r--r--var/spack/repos/builtin/packages/r-xlsxjars/package.py2
-rw-r--r--var/spack/repos/builtin/packages/r-xts/package.py46
-rw-r--r--var/spack/repos/builtin/packages/r-yaml/package.py42
-rw-r--r--var/spack/repos/builtin/packages/r-zoo/package.py47
60 files changed, 1501 insertions, 93 deletions
diff --git a/var/spack/repos/builtin/packages/r-base64enc/package.py b/var/spack/repos/builtin/packages/r-base64enc/package.py
new file mode 100644
index 0000000000..4c5d14a90f
--- /dev/null
+++ b/var/spack/repos/builtin/packages/r-base64enc/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 RBase64enc(Package):
+ """This package provides tools for handling base64 encoding. It is more
+ flexible than the orphaned base64 package."""
+
+ homepage = "http://www.rforge.net/base64enc"
+ url = "https://cran.r-project.org/src/contrib/base64enc_0.1-3.tar.gz"
+ list_url = "https://cran.r-project.org/src/contrib/Archive/base64enc"
+
+ version('0.1-3', '0f476dacdd11a3e0ad56d13f5bc2f190')
+
+ 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-cluster/package.py b/var/spack/repos/builtin/packages/r-cluster/package.py
new file mode 100644
index 0000000000..0fdf2ce5de
--- /dev/null
+++ b/var/spack/repos/builtin/packages/r-cluster/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 RCluster(Package):
+ """Methods for Cluster analysis. Much extended the original from Peter
+ Rousseeuw, Anja Struyf and Mia Hubert, based on Kaufman and Rousseeuw
+ (1990) "Finding Groups in Data"."""
+
+ homepage = "https://cran.r-project.org/web/packages/cluster/index.html"
+ url = "https://cran.r-project.org/src/contrib/cluster_2.0.4.tar.gz"
+ list_url = "https://cran.r-project.org/src/contrib/Archive/cluster"
+
+ version('2.0.4', 'bb4deceaafb1c42bb1278d5d0dc11e59')
+
+ 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-codetools/package.py b/var/spack/repos/builtin/packages/r-codetools/package.py
new file mode 100644
index 0000000000..bea2f78c82
--- /dev/null
+++ b/var/spack/repos/builtin/packages/r-codetools/package.py
@@ -0,0 +1,41 @@
+##############################################################################
+# 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 RCodetools(Package):
+ """Code analysis tools for R."""
+
+ homepage = "https://cran.r-project.org/web/packages/codetools/index.html"
+ url = "https://cran.r-project.org/src/contrib/codetools_0.2-14.tar.gz"
+ list_url = "https://cran.r-project.org/src/contrib/Archive/codetools"
+
+ version('0.2-14', '7ec41d4f8bd6ba85facc8c5e6adc1f4d')
+
+ 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-devtools/package.py b/var/spack/repos/builtin/packages/r-devtools/package.py
index 5f0b7b8779..75506dd257 100644
--- a/var/spack/repos/builtin/packages/r-devtools/package.py
+++ b/var/spack/repos/builtin/packages/r-devtools/package.py
@@ -36,14 +36,14 @@ class RDevtools(Package):
extends('R')
- depends_on('r-httr')
- depends_on('r-memoise')
- depends_on('r-whisker')
- depends_on('r-digest')
- depends_on('r-rstudioapi')
- depends_on('r-jsonlite')
- depends_on('r-git2r')
- depends_on('r-withr')
+ depends_on('r-httr', type=nolink)
+ depends_on('r-memoise', type=nolink)
+ depends_on('r-whisker', type=nolink)
+ depends_on('r-digest', type=nolink)
+ depends_on('r-rstudioapi', type=nolink)
+ depends_on('r-jsonlite', type=nolink)
+ depends_on('r-git2r', type=nolink)
+ depends_on('r-withr', type=nolink)
def install(self, spec, prefix):
R('CMD', 'INSTALL', '--library={0}'.format(self.module.r_lib_dir),
diff --git a/var/spack/repos/builtin/packages/r-diagrammer/package.py b/var/spack/repos/builtin/packages/r-diagrammer/package.py
new file mode 100644
index 0000000000..7ff3b8548b
--- /dev/null
+++ b/var/spack/repos/builtin/packages/r-diagrammer/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 RDiagrammer(Package):
+ """Create graph diagrams and flowcharts using R."""
+
+ homepage = "https://github.com/rich-iannone/DiagrammeR"
+ url = "https://cran.r-project.org/src/contrib/DiagrammeR_0.8.4.tar.gz"
+ list_url = "https://cran.r-project.org/src/contrib/Archive/DiagrammeR"
+
+ version('0.8.4', '9ee295c744f5d4ba9a84289ca7bdaf1a')
+
+ extends('R')
+
+ depends_on('r-htmlwidgets', type=nolink)
+ depends_on('r-igraph', type=nolink)
+ depends_on('r-influencer', type=nolink)
+ depends_on('r-rstudioapi@0.6:', type=nolink)
+ depends_on('r-stringr', type=nolink)
+ depends_on('r-visnetwork', type=nolink)
+ depends_on('r-scales', 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-doparallel/package.py b/var/spack/repos/builtin/packages/r-doparallel/package.py
new file mode 100644
index 0000000000..7cebfd9e58
--- /dev/null
+++ b/var/spack/repos/builtin/packages/r-doparallel/package.py
@@ -0,0 +1,45 @@
+##############################################################################
+# 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 RDoparallel(Package):
+ """Provides a parallel backend for the %dopar% function using the parallel
+ package."""
+
+ homepage = "https://cran.r-project.org/web/packages/doParallel/index.html"
+ url = "https://cran.r-project.org/src/contrib/doParallel_1.0.10.tar.gz"
+ list_url = "https://cran.r-project.org/src/contrib/Archive/doParallel"
+
+ version('1.0.10', 'd9fbde8f315d98d055483ee3493c9b43')
+
+ extends('R')
+
+ depends_on('r-foreach', type=nolink)
+ depends_on('r-iterators', 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-dplyr/package.py b/var/spack/repos/builtin/packages/r-dplyr/package.py
index b065e0b817..ded7651278 100644
--- a/var/spack/repos/builtin/packages/r-dplyr/package.py
+++ b/var/spack/repos/builtin/packages/r-dplyr/package.py
@@ -36,14 +36,15 @@ class RDplyr(Package):
version('0.5.0', '1fcafcacca70806eea2e6d465cdb94ef')
extends('R')
- depends_on('r-assertthat')
- depends_on('r-R6')
- depends_on('r-rcpp')
- depends_on('r-tibble')
- depends_on('r-magrittr')
- depends_on('r-lazyeval')
- depends_on('r-dbi')
- depends_on('r-bh')
+
+ depends_on('r-assertthat', type=nolink)
+ depends_on('r-R6', type=nolink)
+ depends_on('r-rcpp', type=nolink)
+ depends_on('r-tibble', type=nolink)
+ depends_on('r-magrittr', type=nolink)
+ depends_on('r-lazyeval', type=nolink)
+ depends_on('r-dbi', type=nolink)
+ depends_on('r-bh', type=nolink)
def install(self, spec, prefix):
R('CMD', 'INSTALL', '--library={0}'.format(self.module.r_lib_dir),
diff --git a/var/spack/repos/builtin/packages/r-dt/package.py b/var/spack/repos/builtin/packages/r-dt/package.py
new file mode 100644
index 0000000000..f134ee8913
--- /dev/null
+++ b/var/spack/repos/builtin/packages/r-dt/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 RDt(Package):
+ """Data objects in R can be rendered as HTML tables using the JavaScript
+ library 'DataTables' (typically via R Markdown or Shiny). The 'DataTables'
+ library has been included in this R package. The package name 'DT' is an
+ abbreviation of 'DataTables'."""
+
+ homepage = "http://rstudio.github.io/DT"
+ url = "https://cran.r-project.org/src/contrib/DT_0.1.tar.gz"
+
+ version('0.1', '5c8df984921fa484784ec4b8a4fb6f3c')
+
+ extends('R')
+
+ depends_on('r-htmltools', type=nolink)
+ depends_on('r-htmlwidgets', type=nolink)
+ depends_on('r-magrittr', 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-dygraphs/package.py b/var/spack/repos/builtin/packages/r-dygraphs/package.py
new file mode 100644
index 0000000000..9b01d7aa18
--- /dev/null
+++ b/var/spack/repos/builtin/packages/r-dygraphs/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 RDygraphs(Package):
+ """An R interface to the 'dygraphs' JavaScript charting library (a copy of
+ which is included in the package). Provides rich facilities for charting
+ time-series data in R, including highly configurable series- and
+ axis-display and interactive features like zoom/pan and series/point
+ highlighting."""
+
+ homepage = "https://cran.r-project.org/web/packages/dygraphs/index.html"
+ url = "https://cran.r-project.org/src/contrib/dygraphs_0.9.tar.gz"
+ list_url = "https://cran.r-project.org/src/contrib/Archive/dygraphs"
+
+ version('0.9', '7f0ce4312bcd3f0a58b8c03b2772f833')
+
+ extends('R')
+
+ depends_on('r-magrittr', type=nolink)
+ depends_on('r-htmlwidgets', type=nolink)
+ depends_on('r-zoo', type=nolink)
+ depends_on('r-xts', 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-foreach/package.py b/var/spack/repos/builtin/packages/r-foreach/package.py
new file mode 100644
index 0000000000..2a7324ae99
--- /dev/null
+++ b/var/spack/repos/builtin/packages/r-foreach/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 RForeach(Package):
+ """Support for the foreach looping construct. Foreach is an idiom that
+ allows for iterating over elements in a collection, without the use of an
+ explicit loop counter. This package in particular is intended to be used
+ for its return value, rather than for its side effects. In that sense, it
+ is similar to the standard lapply function, but doesn't require the
+ evaluation of a function. Using foreach without side effects also
+ facilitates executing the loop in parallel."""
+
+ homepage = "https://cran.r-project.org/web/packages/foreach/index.html"
+ url = "https://cran.r-project.org/src/contrib/foreach_1.4.3.tar.gz"
+ list_url = "https://cran.r-project.org/src/contrib/Archive/foreach"
+
+ version('1.4.3', 'ef45768126661b259f9b8994462c49a0')
+
+ extends('R')
+
+ depends_on('r-codetools', type=nolink)
+ depends_on('r-iterators', 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-ggplot2/package.py b/var/spack/repos/builtin/packages/r-ggplot2/package.py
index 2d1f53af26..a8cf21930f 100644
--- a/var/spack/repos/builtin/packages/r-ggplot2/package.py
+++ b/var/spack/repos/builtin/packages/r-ggplot2/package.py
@@ -42,12 +42,12 @@ class RGgplot2(Package):
extends('R')
- depends_on('r-digest')
- depends_on('r-gtable')
- depends_on('r-mass')
- depends_on('r-plyr')
- depends_on('r-reshape2')
- depends_on('r-scales')
+ depends_on('r-digest', type=nolink)
+ depends_on('r-gtable', type=nolink)
+ depends_on('r-mass', type=nolink)
+ depends_on('r-plyr', type=nolink)
+ depends_on('r-reshape2', type=nolink)
+ depends_on('r-scales', type=nolink)
def install(self, spec, prefix):
R('CMD', 'INSTALL', '--library={0}'.format(self.module.r_lib_dir),
diff --git a/var/spack/repos/builtin/packages/r-ggvis/package.py b/var/spack/repos/builtin/packages/r-ggvis/package.py
index 8fc1f397c8..29b2069ae9 100644
--- a/var/spack/repos/builtin/packages/r-ggvis/package.py
+++ b/var/spack/repos/builtin/packages/r-ggvis/package.py
@@ -38,13 +38,13 @@ class RGgvis(Package):
extends('R')
- depends_on('r-assertthat')
- depends_on('r-jsonlite')
- depends_on('r-shiny')
- depends_on('r-magrittr')
- depends_on('r-dplyr')
- depends_on('r-lazyeval')
- depends_on('r-htmltools')
+ depends_on('r-assertthat', type=nolink)
+ depends_on('r-jsonlite', type=nolink)
+ depends_on('r-shiny', type=nolink)
+ depends_on('r-magrittr', type=nolink)
+ depends_on('r-dplyr', type=nolink)
+ depends_on('r-lazyeval', type=nolink)
+ depends_on('r-htmltools', type=nolink)
def install(self, spec, prefix):
R('CMD', 'INSTALL', '--library={0}'.format(self.module.r_lib_dir),
diff --git a/var/spack/repos/builtin/packages/r-googlevis/package.py b/var/spack/repos/builtin/packages/r-googlevis/package.py
new file mode 100644
index 0000000000..bcb7caa0fb
--- /dev/null
+++ b/var/spack/repos/builtin/packages/r-googlevis/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 RGooglevis(Package):
+ """R interface to Google Charts API, allowing users to create interactive
+ charts based on data frames. Charts are displayed locally via the R HTTP
+ help server. A modern browser with an Internet connection is required and
+ for some charts a Flash player. The data remains local and is not uploaded
+ to Google."""
+
+ homepage = "https://github.com/mages/googleVis#googlevis"
+ url = "https://cran.r-project.org/src/contrib/googleVis_0.6.0.tar.gz"
+ list_url = "https://cran.r-project.org/src/contrib/Archive/googleVis"
+
+ version('0.6.0', 'ec36fd2a6884ddc7baa894007d0d0468')
+
+ extends('R')
+
+ depends_on('r-jsonlite', 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-gridbase/package.py b/var/spack/repos/builtin/packages/r-gridbase/package.py
new file mode 100644
index 0000000000..a2f55b4470
--- /dev/null
+++ b/var/spack/repos/builtin/packages/r-gridbase/package.py
@@ -0,0 +1,41 @@
+##############################################################################
+# 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 RGridbase(Package):
+ """Integration of base and grid graphics."""
+
+ homepage = "https://cran.r-project.org/web/packages/gridBase/index.html"
+ url = "https://cran.r-project.org/src/contrib/gridBase_0.4-7.tar.gz"
+ list_url = "https://cran.r-project.org/src/contrib/Archive/gridBase"
+
+ version('0.4-7', '6d5064a85f5c966a92ee468ae44c5f1f')
+
+ 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-gridextra/package.py b/var/spack/repos/builtin/packages/r-gridextra/package.py
index d215d10678..537426d42f 100644
--- a/var/spack/repos/builtin/packages/r-gridextra/package.py
+++ b/var/spack/repos/builtin/packages/r-gridextra/package.py
@@ -37,7 +37,7 @@ class RGridextra(Package):
extends('R')
- depends_on('r-gtable')
+ depends_on('r-gtable', type=nolink)
def install(self, spec, prefix):
R('CMD', 'INSTALL', '--library={0}'.format(self.module.r_lib_dir),
diff --git a/var/spack/repos/builtin/packages/r-htmltools/package.py b/var/spack/repos/builtin/packages/r-htmltools/package.py
index 0aea564372..21cdbe9184 100644
--- a/var/spack/repos/builtin/packages/r-htmltools/package.py
+++ b/var/spack/repos/builtin/packages/r-htmltools/package.py
@@ -36,8 +36,8 @@ class RHtmltools(Package):
extends('R')
- depends_on('r-digest')
- depends_on('r-rcpp')
+ depends_on('r-digest', type=nolink)
+ depends_on('r-rcpp', type=nolink)
def install(self, spec, prefix):
R('CMD', 'INSTALL', '--library={0}'.format(self.module.r_lib_dir),
diff --git a/var/spack/repos/builtin/packages/r-htmlwidgets/package.py b/var/spack/repos/builtin/packages/r-htmlwidgets/package.py
new file mode 100644
index 0000000000..8090776f06
--- /dev/null
+++ b/var/spack/repos/builtin/packages/r-htmlwidgets/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 RHtmlwidgets(Package):
+ """A framework for creating HTML widgets that render in various contexts
+ including the R console, 'R Markdown' documents, and 'Shiny' web
+ applications."""
+
+ homepage = "https://github.com/ramnathv/htmlwidgets"
+ url = "https://cran.r-project.org/src/contrib/htmlwidgets_0.6.tar.gz"
+ list_url = "https://cran.r-project.org/src/contrib/Archive/htmlwidgets"
+
+ version('0.6', '7fa522d2eda97593978021bda9670c0e')
+
+ extends('R')
+
+ depends_on('r-htmltools', type=nolink)
+ depends_on('r-jsonlite', type=nolink)
+ depends_on('r-yaml', 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-httpuv/package.py b/var/spack/repos/builtin/packages/r-httpuv/package.py
index 6ab12bcf9d..57025d3a3c 100644
--- a/var/spack/repos/builtin/packages/r-httpuv/package.py
+++ b/var/spack/repos/builtin/packages/r-httpuv/package.py
@@ -42,7 +42,7 @@ class RHttpuv(Package):
extends('R')
- depends_on('r-rcpp')
+ depends_on('r-rcpp', type=nolink)
def install(self, spec, prefix):
R('CMD', 'INSTALL', '--library={0}'.format(self.module.r_lib_dir),
diff --git a/var/spack/repos/builtin/packages/r-httr/package.py b/var/spack/repos/builtin/packages/r-httr/package.py
index 77ec34ab03..227594fc0d 100644
--- a/var/spack/repos/builtin/packages/r-httr/package.py
+++ b/var/spack/repos/builtin/packages/r-httr/package.py
@@ -38,11 +38,11 @@ class RHttr(Package):
extends('R')
- depends_on('r-jsonlite')
- depends_on('r-mime')
- depends_on('r-curl')
- depends_on('r-openssl')
- depends_on('r-R6')
+ depends_on('r-jsonlite', type=nolink)
+ depends_on('r-mime', type=nolink)
+ depends_on('r-curl', type=nolink)
+ depends_on('r-openssl', type=nolink)
+ depends_on('r-R6', type=nolink)
def install(self, spec, prefix):
R('CMD', 'INSTALL', '--library={0}'.format(self.module.r_lib_dir),
diff --git a/var/spack/repos/builtin/packages/r-igraph/package.py b/var/spack/repos/builtin/packages/r-igraph/package.py
new file mode 100644
index 0000000000..37925d4e02
--- /dev/null
+++ b/var/spack/repos/builtin/packages/r-igraph/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 RIgraph(Package):
+ """Routines for simple graphs and network analysis. It can handle large
+ graphs very well and provides functions for generating random and regular
+ graphs, graph visualization, centrality methods and much more."""
+
+ homepage = "http://igraph.org/"
+ url = "https://cran.r-project.org/src/contrib/igraph_1.0.1.tar.gz"
+ list_url = "https://cran.r-project.org/src/contrib/Archive/igraph"
+
+ version('1.0.1', 'ea33495e49adf4a331e4ba60ba559065')
+
+ extends('R')
+
+ depends_on('r-matrix', type=nolink)
+ depends_on('r-magrittr', type=nolink)
+ depends_on('r-nmf', type=nolink)
+ depends_on('r-irlba', type=nolink)
+ depends_on('gmp')
+ depends_on('libxml2')
+
+ 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-influencer/package.py b/var/spack/repos/builtin/packages/r-influencer/package.py
new file mode 100644
index 0000000000..dd525daf2b
--- /dev/null
+++ b/var/spack/repos/builtin/packages/r-influencer/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 RInfluencer(Package):
+ """Provides functionality to compute various node centrality measures on
+ networks. Included are functions to compute betweenness centrality (by
+ utilizing Madduri and Bader's SNAP library), implementations of Burt's
+ constraint and effective network size (ENS) metrics, Borgatti's algorithm
+ to identify key players, and Valente's bridging metric. On Unix systems,
+ the betweenness, Key Players, and bridging implementations are parallelized
+ with OpenMP, which may run faster on systems which have OpenMP
+ configured."""
+
+ homepage = "https://github.com/rcc-uchicago/influenceR"
+ url = "https://cran.r-project.org/src/contrib/influenceR_0.1.0.tar.gz"
+
+ version('0.1.0', '6c8b6decd78c341364b5811fb3050ba5')
+
+ extends('R')
+
+ depends_on('r-igraph', 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-irlba/package.py b/var/spack/repos/builtin/packages/r-irlba/package.py
new file mode 100644
index 0000000000..42cc142e8a
--- /dev/null
+++ b/var/spack/repos/builtin/packages/r-irlba/package.py
@@ -0,0 +1,45 @@
+##############################################################################
+# 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 RIrlba(Package):
+ """Fast and memory efficient methods for truncated singular and eigenvalue
+ decompositions and principal component analysis of large sparse or dense
+ matrices."""
+
+ homepage = "https://cran.r-project.org/web/packages/irlba/index.html"
+ url = "https://cran.r-project.org/src/contrib/irlba_2.0.0.tar.gz"
+ list_url = "https://cran.r-project.org/src/contrib/Archive/irlba"
+
+ version('2.0.0', '557674cf8b68fea5b9f231058c324d26')
+
+ 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-iterators/package.py b/var/spack/repos/builtin/packages/r-iterators/package.py
new file mode 100644
index 0000000000..f5a3489e7d
--- /dev/null
+++ b/var/spack/repos/builtin/packages/r-iterators/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 RIterators(Package):
+ """Support for iterators, which allow a programmer to traverse through all
+ the elements of a vector, list, or other collection of data."""
+
+ homepage = "https://cran.r-project.org/web/packages/iterators/index.html"
+ url = "https://cran.r-project.org/src/contrib/iterators_1.0.8.tar.gz"
+ list_url = "https://cran.r-project.org/src/contrib/Archive/iterators"
+
+ version('1.0.8', '2ded7f82cddd8174f1ec98607946c6ee')
+
+ 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-leaflet/package.py b/var/spack/repos/builtin/packages/r-leaflet/package.py
new file mode 100644
index 0000000000..2a91100c34
--- /dev/null
+++ b/var/spack/repos/builtin/packages/r-leaflet/package.py
@@ -0,0 +1,54 @@
+##############################################################################
+# 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 RLeaflet(Package):
+ """Create and customize interactive maps using the 'Leaflet' JavaScript
+ library and the 'htmlwidgets' package. These maps can be used directly from
+ the R console, from 'RStudio', in Shiny apps and R Markdown documents."""
+
+ homepage = "http://rstudio.github.io/leaflet/"
+ url = "https://cran.r-project.org/src/contrib/leaflet_1.0.1.tar.gz"
+ list_url = "https://cran.r-project.org/src/contrib/Archive/leaflet"
+
+ version('1.0.1', '7f3d8b17092604d87d4eeb579f73d5df')
+
+ extends('R')
+
+ depends_on('r-base64enc', type=nolink)
+ depends_on('r-htmlwidgets', type=nolink)
+ depends_on('r-htmltools', type=nolink)
+ depends_on('r-magrittr', type=nolink)
+ depends_on('r-markdown', type=nolink)
+ depends_on('r-png', type=nolink)
+ depends_on('r-rcolorbrewer', type=nolink)
+ depends_on('r-raster', type=nolink)
+ depends_on('r-scales', type=nolink)
+ depends_on('r-sp', 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-lubridate/package.py b/var/spack/repos/builtin/packages/r-lubridate/package.py
index 88576911f0..2e5661fa4d 100644
--- a/var/spack/repos/builtin/packages/r-lubridate/package.py
+++ b/var/spack/repos/builtin/packages/r-lubridate/package.py
@@ -40,7 +40,8 @@ class RLubridate(Package):
version('1.5.6', 'a5dc44817548ee219d26a10bae92e611')
extends('R')
- depends_on('r-stringr')
+
+ depends_on('r-stringr', type=nolink)
def install(self, spec, prefix):
R('CMD', 'INSTALL', '--library={0}'.format(self.module.r_lib_dir),
diff --git a/var/spack/repos/builtin/packages/r-magic/package.py b/var/spack/repos/builtin/packages/r-magic/package.py
index f6ba97740b..2b8f95351a 100644
--- a/var/spack/repos/builtin/packages/r-magic/package.py
+++ b/var/spack/repos/builtin/packages/r-magic/package.py
@@ -39,7 +39,7 @@ class RMagic(Package):
extends('R')
- depends_on('r-abind')
+ depends_on('r-abind', type=nolink)
def install(self, spec, prefix):
R('CMD', 'INSTALL', '--library={0}'.format(self.module.r_lib_dir),
diff --git a/var/spack/repos/builtin/packages/r-markdown/package.py b/var/spack/repos/builtin/packages/r-markdown/package.py
new file mode 100644
index 0000000000..c34727d2b0
--- /dev/null
+++ b/var/spack/repos/builtin/packages/r-markdown/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 RMarkdown(Package):
+ """Provides R bindings to the 'Sundown' 'Markdown' rendering library
+ (https://github.com/vmg/sundown). 'Markdown' is a plain-text formatting
+ syntax that can be converted to 'XHTML' or other formats. See
+ http://en.wikipedia.org/wiki/Markdown for more information about
+ 'Markdown'."""
+
+ homepage = "https://github.com/rstudio/markdown"
+ url = "https://cran.r-project.org/src/contrib/markdown_0.7.7.tar.gz"
+ list_url = "https://cran.r-project.org/src/contrib/Archive/markdown"
+
+ version('0.7.7', '72deca9c675c7cc9343048edbc29f7ff')
+
+ extends('R')
+
+ depends_on('r-mime', 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-matrix/package.py b/var/spack/repos/builtin/packages/r-matrix/package.py
index fbd8a7b4df..1b45dc55ca 100644
--- a/var/spack/repos/builtin/packages/r-matrix/package.py
+++ b/var/spack/repos/builtin/packages/r-matrix/package.py
@@ -37,7 +37,7 @@ class RMatrix(Package):
extends('R')
- depends_on('r-lattice')
+ depends_on('r-lattice', type=nolink)
def install(self, spec, prefix):
R('CMD', 'INSTALL', '--library={0}'.format(self.module.r_lib_dir),
diff --git a/var/spack/repos/builtin/packages/r-memoise/package.py b/var/spack/repos/builtin/packages/r-memoise/package.py
index 6a0fb78650..81f3ff1dab 100644
--- a/var/spack/repos/builtin/packages/r-memoise/package.py
+++ b/var/spack/repos/builtin/packages/r-memoise/package.py
@@ -37,7 +37,7 @@ class RMemoise(Package):
extends('R')
- depends_on('r-digest')
+ depends_on('r-digest', type=nolink)
def install(self, spec, prefix):
R('CMD', 'INSTALL', '--library={0}'.format(self.module.r_lib_dir),
diff --git a/var/spack/repos/builtin/packages/r-munsell/package.py b/var/spack/repos/builtin/packages/r-munsell/package.py
index 3216c95e00..b96b90f9c7 100644
--- a/var/spack/repos/builtin/packages/r-munsell/package.py
+++ b/var/spack/repos/builtin/packages/r-munsell/package.py
@@ -40,7 +40,7 @@ class RMunsell(Package):
extends('R')
- depends_on('r-colorspace')
+ depends_on('r-colorspace', type=nolink)
def install(self, spec, prefix):
R('CMD', 'INSTALL', '--library={0}'.format(self.module.r_lib_dir),
diff --git a/var/spack/repos/builtin/packages/r-networkd3/package.py b/var/spack/repos/builtin/packages/r-networkd3/package.py
new file mode 100644
index 0000000000..8884f7cf1b
--- /dev/null
+++ b/var/spack/repos/builtin/packages/r-networkd3/package.py
@@ -0,0 +1,46 @@
+##############################################################################
+# 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 RNetworkd3(Package):
+ """Creates 'D3' 'JavaScript' network, tree, dendrogram, and Sankey graphs
+ from 'R'."""
+
+ homepage = "http://cran.r-project.org/package=networkD3"
+ url = "https://cran.r-project.org/src/contrib/networkD3_0.2.12.tar.gz"
+ list_url = "https://cran.r-project.org/src/contrib/Archive/networkD3"
+
+ version('0.2.12', '356fe4be59698e6fb052644bd9659d84')
+
+ extends('R')
+
+ depends_on('r-htmlwidgets', type=nolink)
+ depends_on('r-igraph', type=nolink)
+ depends_on('r-magrittr', 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-nmf/package.py b/var/spack/repos/builtin/packages/r-nmf/package.py
new file mode 100644
index 0000000000..c30a1ac101
--- /dev/null
+++ b/var/spack/repos/builtin/packages/r-nmf/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 RNmf(Package):
+ """Provides a framework to perform Non-negative Matrix Factorization (NMF).
+ The package implements a set of already published algorithms and seeding
+ methods, and provides a framework to test, develop and plug new/custom
+ algorithms. Most of the built-in algorithms have been optimized in C++, and
+ the main interface function provides an easy way of performing parallel
+ computations on multicore machines.."""
+
+ homepage = "http://renozao.github.io/NMF"
+ url = "https://cran.r-project.org/src/contrib/NMF_0.20.6.tar.gz"
+ list_url = "https://cran.r-project.org/src/contrib/Archive/NMF"
+
+ version('0.20.6', '81df07b3bf710a611db5af24730ff3d0')
+
+ extends('R')
+
+ depends_on('r-pkgmaker', type=nolink)
+ depends_on('r-registry', type=nolink)
+ depends_on('r-rngtools', type=nolink)
+ depends_on('r-cluster', type=nolink)
+ depends_on('r-stringr', type=nolink)
+ depends_on('r-digest', type=nolink)
+ depends_on('r-gridbase', type=nolink)
+ depends_on('r-colorspace', type=nolink)
+ depends_on('r-rcolorbrewer', type=nolink)
+ depends_on('r-foreach', type=nolink)
+ depends_on('r-doparallel', type=nolink)
+ depends_on('r-ggplot2', type=nolink)
+ depends_on('r-reshape2', 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-pkgmaker/package.py b/var/spack/repos/builtin/packages/r-pkgmaker/package.py
new file mode 100644
index 0000000000..87daec5ad0
--- /dev/null
+++ b/var/spack/repos/builtin/packages/r-pkgmaker/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 RPkgmaker(Package):
+ """This package provides some low-level utilities to use for package
+ development. It currently provides managers for multiple package specific
+ options and registries, vignette, unit test and bibtex related utilities.
+ It serves as a base package for packages like NMF, RcppOctave, doRNG, and
+ as an incubator package for other general purposes utilities, that will
+ eventually be packaged separately. It is still under heavy development and
+ changes in the interface(s) are more than likely to happen."""
+
+ homepage = "https://renozao.github.io/pkgmaker"
+ url = "https://cran.r-project.org/src/contrib/pkgmaker_0.22.tar.gz"
+ list_url = "https://cran.r-project.org/src/contrib/Archive/pkgmaker"
+
+ version('0.22', '73a0c6d3e84c6dadf3de7582ef7e88a4')
+
+ extends('R')
+
+ depends_on('r-registry', type=nolink)
+ depends_on('r-codetools', type=nolink)
+ depends_on('r-digest', type=nolink)
+ depends_on('r-stringr', type=nolink)
+ depends_on('r-xtable', 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-plyr/package.py b/var/spack/repos/builtin/packages/r-plyr/package.py
index 192e7e8b18..fe4512347a 100644
--- a/var/spack/repos/builtin/packages/r-plyr/package.py
+++ b/var/spack/repos/builtin/packages/r-plyr/package.py
@@ -42,7 +42,7 @@ class RPlyr(Package):
extends('R')
- depends_on('r-rcpp')
+ depends_on('r-rcpp', type=nolink)
def install(self, spec, prefix):
R('CMD', 'INSTALL', '--library={0}'.format(self.module.r_lib_dir),
diff --git a/var/spack/repos/builtin/packages/r-png/package.py b/var/spack/repos/builtin/packages/r-png/package.py
new file mode 100644
index 0000000000..d3a80a4e16
--- /dev/null
+++ b/var/spack/repos/builtin/packages/r-png/package.py
@@ -0,0 +1,45 @@
+##############################################################################
+# 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 RPng(Package):
+ """This package provides an easy and simple way to read, write and display
+ bitmap images stored in the PNG format. It can read and write both files
+ and in-memory raw vectors."""
+
+ homepage = "http://www.rforge.net/png/"
+ url = "https://cran.r-project.org/src/contrib/png_0.1-7.tar.gz"
+ list_url = "https://cran.r-project.org/src/contrib/Archive/png"
+
+ version('0.1-7', '1ebc8b8aa5979b12c5ec2384b30d649f')
+
+ extends('R')
+
+ depends_on('libpng')
+
+ 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-raster/package.py b/var/spack/repos/builtin/packages/r-raster/package.py
new file mode 100644
index 0000000000..39f4256703
--- /dev/null
+++ b/var/spack/repos/builtin/packages/r-raster/package.py
@@ -0,0 +1,46 @@
+##############################################################################
+# 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 RRaster(Package):
+ """Reading, writing, manipulating, analyzing and modeling of gridded
+ spatial data. The package implements basic and high-level functions.
+ Processing of very large files is supported."""
+
+ homepage = "http://cran.r-project.org/package=raster"
+ url = "https://cran.r-project.org/src/contrib/raster_2.5-8.tar.gz"
+ list_url = "https://cran.r-project.org/src/contrib/Archive/raster"
+
+ version('2.5-8', '2a7db931c74d50516e82d04687c0a577')
+
+ extends('R')
+
+ depends_on('r-sp', type=nolink)
+ 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-rcppeigen/package.py b/var/spack/repos/builtin/packages/r-rcppeigen/package.py
index 3175628a73..ecf9256ab3 100644
--- a/var/spack/repos/builtin/packages/r-rcppeigen/package.py
+++ b/var/spack/repos/builtin/packages/r-rcppeigen/package.py
@@ -48,8 +48,8 @@ class RRcppeigen(Package):
extends('R')
- depends_on('r-matrix')
- depends_on('r-rcpp')
+ depends_on('r-matrix', type=nolink)
+ depends_on('r-rcpp', type=nolink)
def install(self, spec, prefix):
R('CMD', 'INSTALL', '--library={0}'.format(self.module.r_lib_dir),
diff --git a/var/spack/repos/builtin/packages/r-registry/package.py b/var/spack/repos/builtin/packages/r-registry/package.py
new file mode 100644
index 0000000000..119a84718a
--- /dev/null
+++ b/var/spack/repos/builtin/packages/r-registry/package.py
@@ -0,0 +1,41 @@
+##############################################################################
+# 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 RRegistry(Package):
+ """Provides a generic infrastructure for creating and using registries."""
+
+ homepage = "https://cran.r-project.org/web/packages/registry/index.html"
+ url = "https://cran.r-project.org/src/contrib/registry_0.3.tar.gz"
+ list_url = "https://cran.r-project.org/src/contrib/Archive/registry"
+
+ version('0.3', '85345b334ec81eb3da6edcbb27c5f421')
+
+ 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-reshape2/package.py b/var/spack/repos/builtin/packages/r-reshape2/package.py
index a96a314008..769e82aff9 100644
--- a/var/spack/repos/builtin/packages/r-reshape2/package.py
+++ b/var/spack/repos/builtin/packages/r-reshape2/package.py
@@ -37,9 +37,9 @@ class RReshape2(Package):
extends('R')
- depends_on('r-plyr')
- depends_on('r-stringr')
- depends_on('r-rcpp')
+ depends_on('r-plyr', type=nolink)
+ depends_on('r-stringr', type=nolink)
+ depends_on('r-rcpp', type=nolink)
def install(self, spec, prefix):
R('CMD', 'INSTALL', '--library={0}'.format(self.module.r_lib_dir),
diff --git a/var/spack/repos/builtin/packages/r-rmysql/package.py b/var/spack/repos/builtin/packages/r-rmysql/package.py
index 086374df07..bc42c51ca9 100644
--- a/var/spack/repos/builtin/packages/r-rmysql/package.py
+++ b/var/spack/repos/builtin/packages/r-rmysql/package.py
@@ -36,7 +36,7 @@ class RRmysql(Package):
extends('R')
- depends_on('r-dbi')
+ depends_on('r-dbi', type=nolink)
depends_on('mariadb')
def install(self, spec, prefix):
diff --git a/var/spack/repos/builtin/packages/r-rngtools/package.py b/var/spack/repos/builtin/packages/r-rngtools/package.py
new file mode 100644
index 0000000000..2f33cd9f88
--- /dev/null
+++ b/var/spack/repos/builtin/packages/r-rngtools/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 RRngtools(Package):
+ """This package contains a set of functions for working with Random Number
+ Generators (RNGs). In particular, it defines a generic S4 framework for
+ getting/setting the current RNG, or RNG data that are embedded into objects
+ for reproducibility. Notably, convenient default methods greatly facilitate
+ the way current RNG settings can be changed."""
+
+ homepage = "https://renozao.github.io/rngtools"
+ url = "https://cran.r-project.org/src/contrib/rngtools_1.2.4.tar.gz"
+ list_url = "https://cran.r-project.org/src/contrib/Archive/rngtools"
+
+ version('1.2.4', '715967f8b3af2848a76593a7c718c1cd')
+
+ extends('R')
+
+ depends_on('r-pkgmaker', type=nolink)
+ depends_on('r-stringr', type=nolink)
+ depends_on('r-digest', 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-rpostgresql/package.py b/var/spack/repos/builtin/packages/r-rpostgresql/package.py
index 53e1978ffe..999fb4a1b9 100644
--- a/var/spack/repos/builtin/packages/r-rpostgresql/package.py
+++ b/var/spack/repos/builtin/packages/r-rpostgresql/package.py
@@ -44,7 +44,7 @@ class RRpostgresql(Package):
extends('R')
- depends_on('r-dbi')
+ depends_on('r-dbi', type=nolink)
depends_on('postgresql')
def install(self, spec, prefix):
diff --git a/var/spack/repos/builtin/packages/r-rsqlite/package.py b/var/spack/repos/builtin/packages/r-rsqlite/package.py
index 7c03ab8950..c7d41f0fb3 100644
--- a/var/spack/repos/builtin/packages/r-rsqlite/package.py
+++ b/var/spack/repos/builtin/packages/r-rsqlite/package.py
@@ -38,7 +38,7 @@ class RRsqlite(Package):
extends('R')
- depends_on('r-dbi')
+ depends_on('r-dbi', type=nolink)
def install(self, spec, prefix):
R('CMD', 'INSTALL', '--library={0}'.format(self.module.r_lib_dir),
diff --git a/var/spack/repos/builtin/packages/r-rstan/package.py b/var/spack/repos/builtin/packages/r-rstan/package.py
index 00fd5116d9..1d0052563b 100644
--- a/var/spack/repos/builtin/packages/r-rstan/package.py
+++ b/var/spack/repos/builtin/packages/r-rstan/package.py
@@ -44,13 +44,13 @@ class RRstan(Package):
extends('R')
- depends_on('r-ggplot2')
- depends_on('r-stanheaders')
- depends_on('r-inline')
- depends_on('r-gridextra')
- depends_on('r-rcpp')
- depends_on('r-rcppeigen')
- depends_on('r-bh')
+ depends_on('r-ggplot2', type=nolink)
+ depends_on('r-stanheaders', type=nolink)
+ depends_on('r-inline', type=nolink)
+ depends_on('r-gridextra', type=nolink)
+ depends_on('r-rcpp', type=nolink)
+ depends_on('r-rcppeigen', type=nolink)
+ depends_on('r-bh', type=nolink)
def install(self, spec, prefix):
R('CMD', 'INSTALL', '--library={0}'.format(self.module.r_lib_dir),
diff --git a/var/spack/repos/builtin/packages/r-rstudioapi/package.py b/var/spack/repos/builtin/packages/r-rstudioapi/package.py
index 0ef2d9b987..bf9b35fe5b 100644
--- a/var/spack/repos/builtin/packages/r-rstudioapi/package.py
+++ b/var/spack/repos/builtin/packages/r-rstudioapi/package.py
@@ -33,6 +33,7 @@ class RRstudioapi(Package):
url = "https://cran.r-project.org/src/contrib/rstudioapi_0.5.tar.gz"
list_url = "https://cran.r-project.org/src/contrib/Archive/rstudioapi"
+ version('0.6', 'fdb13bf46aab02421557e713fceab66b')
version('0.5', '6ce1191da74e7bcbf06b61339486b3ba')
extends('R')
diff --git a/var/spack/repos/builtin/packages/r-scales/package.py b/var/spack/repos/builtin/packages/r-scales/package.py
index 046a05d48e..44bd5a5a2a 100644
--- a/var/spack/repos/builtin/packages/r-scales/package.py
+++ b/var/spack/repos/builtin/packages/r-scales/package.py
@@ -37,12 +37,12 @@ class RScales(Package):
extends('R')
- depends_on('r-rcolorbrewer')
- depends_on('r-dichromat')
- depends_on('r-plyr')
- depends_on('r-munsell')
- depends_on('r-labeling')
- depends_on('r-rcpp')
+ depends_on('r-rcolorbrewer', type=nolink)
+ depends_on('r-dichromat', type=nolink)
+ depends_on('r-plyr', type=nolink)
+ depends_on('r-munsell', type=nolink)
+ depends_on('r-labeling', type=nolink)
+ depends_on('r-rcpp', type=nolink)
def install(self, spec, prefix):
R('CMD', 'INSTALL', '--library={0}'.format(self.module.r_lib_dir),
diff --git a/var/spack/repos/builtin/packages/r-shiny/package.py b/var/spack/repos/builtin/packages/r-shiny/package.py
index a9a9532910..a80860f4a5 100644
--- a/var/spack/repos/builtin/packages/r-shiny/package.py
+++ b/var/spack/repos/builtin/packages/r-shiny/package.py
@@ -39,13 +39,13 @@ class RShiny(Package):
extends('R')
- depends_on('r-httpuv')
- depends_on('r-mime')
- depends_on('r-jsonlite')
- depends_on('r-xtable')
- depends_on('r-digest')
- depends_on('r-htmltools')
- depends_on('r-R6')
+ depends_on('r-httpuv', type=nolink)
+ depends_on('r-mime', type=nolink)
+ depends_on('r-jsonlite', type=nolink)
+ depends_on('r-xtable', type=nolink)
+ depends_on('r-digest', type=nolink)
+ depends_on('r-htmltools', type=nolink)
+ depends_on('r-R6', type=nolink)
def install(self, spec, prefix):
R('CMD', 'INSTALL', '--library={0}'.format(self.module.r_lib_dir),
diff --git a/var/spack/repos/builtin/packages/r-sp/package.py b/var/spack/repos/builtin/packages/r-sp/package.py
new file mode 100644
index 0000000000..bb7589d490
--- /dev/null
+++ b/var/spack/repos/builtin/packages/r-sp/package.py
@@ -0,0 +1,46 @@
+##############################################################################
+# 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 RSp(Package):
+ """Classes and methods for spatial data; the classes document where the
+ spatial location information resides, for 2D or 3D data. Utility functions
+ are provided, e.g. for plotting data as maps, spatial selection, as well as
+ methods for retrieving coordinates, for subsetting, print, summary, etc."""
+
+ homepage = "https://github.com/edzer/sp/"
+ url = "https://cran.r-project.org/src/contrib/sp_1.2-3.tar.gz"
+ list_url = "https://cran.r-project.org/src/contrib/Archive/sp"
+
+ version('1.2-3', 'f0e24d993dec128642ee66b6b47b10c1')
+
+ 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-stringr/package.py b/var/spack/repos/builtin/packages/r-stringr/package.py
index 01fd969522..08ded95833 100644
--- a/var/spack/repos/builtin/packages/r-stringr/package.py
+++ b/var/spack/repos/builtin/packages/r-stringr/package.py
@@ -40,8 +40,8 @@ class RStringr(Package):
extends('R')
- depends_on('r-stringi')
- depends_on('r-magrittr')
+ depends_on('r-stringi', type=nolink)
+ depends_on('r-magrittr', type=nolink)
def install(self, spec, prefix):
R('CMD', 'INSTALL', '--library={0}'.format(self.module.r_lib_dir),
diff --git a/var/spack/repos/builtin/packages/r-threejs/package.py b/var/spack/repos/builtin/packages/r-threejs/package.py
new file mode 100644
index 0000000000..89ecce8bfc
--- /dev/null
+++ b/var/spack/repos/builtin/packages/r-threejs/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 RThreejs(Package):
+ """Create interactive 3D scatter plots, network plots, and globes using the
+ 'three.js' visualization library ("http://threejs.org")."""
+
+ homepage = "http://bwlewis.github.io/rthreejs"
+ url = "https://cran.r-project.org/src/contrib/threejs_0.2.2.tar.gz"
+ list_url = "https://cran.r-project.org/src/contrib/Archive/threejs"
+
+ version('0.2.2', '35c179b10813c5e4bd3e7827fae6627b')
+
+ extends('R')
+
+ depends_on('r-htmlwidgets', type=nolink)
+ depends_on('r-base64enc', type=nolink)
+ depends_on('r-matrix', type=nolink)
+ depends_on('r-jsonlite', 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-tibble/package.py b/var/spack/repos/builtin/packages/r-tibble/package.py
index 837c3df603..c601de3c88 100644
--- a/var/spack/repos/builtin/packages/r-tibble/package.py
+++ b/var/spack/repos/builtin/packages/r-tibble/package.py
@@ -37,9 +37,9 @@ class RTibble(Package):
extends('R')
- depends_on('r-assertthat')
- depends_on('r-lazyeval')
- depends_on('r-rcpp')
+ depends_on('r-assertthat', type=nolink)
+ depends_on('r-lazyeval', type=nolink)
+ depends_on('r-rcpp', type=nolink)
def install(self, spec, prefix):
R('CMD', 'INSTALL', '--library={0}'.format(self.module.r_lib_dir),
diff --git a/var/spack/repos/builtin/packages/r-tidyr/package.py b/var/spack/repos/builtin/packages/r-tidyr/package.py
index 2db7b174c2..d82ae278fe 100644
--- a/var/spack/repos/builtin/packages/r-tidyr/package.py
+++ b/var/spack/repos/builtin/packages/r-tidyr/package.py
@@ -37,12 +37,12 @@ class RTidyr(Package):
version('0.5.1', '3cadc869510c054ed93d374ab44120bd')
extends('R')
- depends_on('r-tibble')
- depends_on('r-dplyr')
- depends_on('r-stringi')
- depends_on('r-lazyeval')
- depends_on('r-magrittr')
- depends_on('r-rcpp')
+ depends_on('r-tibble', type=nolink)
+ depends_on('r-dplyr', type=nolink)
+ depends_on('r-stringi', type=nolink)
+ depends_on('r-lazyeval', type=nolink)
+ depends_on('r-magrittr', type=nolink)
+ depends_on('r-rcpp', type=nolink)
def install(self, spec, prefix):
R('CMD', 'INSTALL', '--library={0}'.format(self.module.r_lib_dir),
diff --git a/var/spack/repos/builtin/packages/r-visnetwork/package.py b/var/spack/repos/builtin/packages/r-visnetwork/package.py
new file mode 100644
index 0000000000..90d55bbb2f
--- /dev/null
+++ b/var/spack/repos/builtin/packages/r-visnetwork/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 RVisnetwork(Package):
+ """Provides an R interface to the 'vis.js' JavaScript charting library. It
+ allows an interactive visualization of networks."""
+
+ homepage = "https://github.com/datastorm-open/visNetwork"
+ url = "https://cran.r-project.org/src/contrib/visNetwork_1.0.1.tar.gz"
+ list_url = "https://cran.r-project.org/src/contrib/Archive/visNetwork"
+
+ version('1.0.1', 'dfc9664a5165134d8dbdcd949ad73cf7')
+
+ extends('R')
+
+ depends_on('r-htmlwidgets', type=nolink)
+ depends_on('r-htmltools', type=nolink)
+ depends_on('r-jsonlite', type=nolink)
+ depends_on('r-magrittr', 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-xlconnect/package.py b/var/spack/repos/builtin/packages/r-xlconnect/package.py
index 4ee7163be1..332c80fb92 100644
--- a/var/spack/repos/builtin/packages/r-xlconnect/package.py
+++ b/var/spack/repos/builtin/packages/r-xlconnect/package.py
@@ -33,13 +33,13 @@ class RXlconnect(Package):
url = "https://cran.r-project.org/src/contrib/XLConnect_0.2-11.tar.gz"
list_url = "https://cran.r-project.org/src/contrib/Archive/XLConnect"
- version('0.2-11', '9d1769a103cda05665df399cc335017d',
- url='https://cran.r-project.org/src/contrib/Archive/XLConnect/XLConnect_0.2-11.tar.gz')
+ version('0.2-12', '3340d05d259f0a41262eab4ed32617ad')
+ version('0.2-11', '9d1769a103cda05665df399cc335017d')
extends('R')
- depends_on('r-xlconnectjars')
- depends_on('r-rjava')
+ depends_on('r-xlconnectjars', type=nolink)
+ depends_on('r-rjava', type=nolink)
def install(self, spec, prefix):
R('CMD', 'INSTALL', '--library={0}'.format(self.module.r_lib_dir),
diff --git a/var/spack/repos/builtin/packages/r-xlconnectjars/package.py b/var/spack/repos/builtin/packages/r-xlconnectjars/package.py
index c1fb365883..26e822d2b7 100644
--- a/var/spack/repos/builtin/packages/r-xlconnectjars/package.py
+++ b/var/spack/repos/builtin/packages/r-xlconnectjars/package.py
@@ -32,12 +32,12 @@ class RXlconnectjars(Package):
url = "https://cran.r-project.org/src/contrib/XLConnectJars_0.2-9.tar.gz"
list_url = "https://cran.r-project.org/src/contrib/Archive/XLConnectJars"
- version('0.2-9', 'e6d6b1acfede26acaa616ee421bd30fb',
- url='https://cran.r-project.org/src/contrib/Archive/XLConnectJars/XLConnectJars_0.2-9.tar.gz')
+ version('0.2-12', '6984e5140cd1c887c017ef6f88cbba81')
+ version('0.2-9', 'e6d6b1acfede26acaa616ee421bd30fb')
extends('R')
- depends_on('r-rjava')
+ depends_on('r-rjava', type=nolink)
def install(self, spec, prefix):
R('CMD', 'INSTALL', '--library={0}'.format(self.module.r_lib_dir),
diff --git a/var/spack/repos/builtin/packages/r-xlsx/package.py b/var/spack/repos/builtin/packages/r-xlsx/package.py
index 99d41dbb94..6fed09296d 100644
--- a/var/spack/repos/builtin/packages/r-xlsx/package.py
+++ b/var/spack/repos/builtin/packages/r-xlsx/package.py
@@ -37,8 +37,8 @@ class RXlsx(Package):
extends('R')
- depends_on('r-rjava')
- depends_on('r-xlsxjars')
+ depends_on('r-rjava', type=nolink)
+ depends_on('r-xlsxjars', type=nolink)
def install(self, spec, prefix):
R('CMD', 'INSTALL', '--library={0}'.format(self.module.r_lib_dir),
diff --git a/var/spack/repos/builtin/packages/r-xlsxjars/package.py b/var/spack/repos/builtin/packages/r-xlsxjars/package.py
index 80e86d0c73..19f0006ce9 100644
--- a/var/spack/repos/builtin/packages/r-xlsxjars/package.py
+++ b/var/spack/repos/builtin/packages/r-xlsxjars/package.py
@@ -37,7 +37,7 @@ class RXlsxjars(Package):
extends('R')
- depends_on('r-rjava')
+ depends_on('r-rjava', type=nolink)
def install(self, spec, prefix):
R('CMD', 'INSTALL', '--library={0}'.format(self.module.r_lib_dir),
diff --git a/var/spack/repos/builtin/packages/r-xts/package.py b/var/spack/repos/builtin/packages/r-xts/package.py
new file mode 100644
index 0000000000..d8a4b62d27
--- /dev/null
+++ b/var/spack/repos/builtin/packages/r-xts/package.py
@@ -0,0 +1,46 @@
+##############################################################################
+# 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 RXts(Package):
+ """Provide for uniform handling of R's different time-based data classes by
+ extending zoo, maximizing native format information preservation and
+ allowing for user level customization and extension, while simplifying
+ cross-class interoperability."""
+
+ homepage = "http://r-forge.r-project.org/projects/xts/"
+ url = "https://cran.r-project.org/src/contrib/xts_0.9-7.tar.gz"
+ list_url = "https://cran.r-project.org/src/contrib/Archive/xts"
+
+ version('0.9-7', 'a232e94aebfa654653a7d88a0503537b')
+
+ extends('R')
+
+ depends_on('r-zoo', 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-yaml/package.py b/var/spack/repos/builtin/packages/r-yaml/package.py
new file mode 100644
index 0000000000..b68f26e9b8
--- /dev/null
+++ b/var/spack/repos/builtin/packages/r-yaml/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 RYaml(Package):
+ """This package implements the libyaml YAML 1.1 parser and emitter
+ (http://pyyaml.org/wiki/LibYAML) for R."""
+
+ homepage = "https://cran.r-project.org/web/packages/yaml/index.html"
+ url = "https://cran.r-project.org/src/contrib/yaml_2.1.13.tar.gz"
+ list_url = "https://cran.r-project.org/src/contrib/Archive/yaml"
+
+ version('2.1.13', 'f2203ea395adaff6bd09134666191d9a')
+
+ 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-zoo/package.py b/var/spack/repos/builtin/packages/r-zoo/package.py
new file mode 100644
index 0000000000..d889cacbee
--- /dev/null
+++ b/var/spack/repos/builtin/packages/r-zoo/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 RZoo(Package):
+ """An S3 class with methods for totally ordered indexed observations. It is
+ particularly aimed at irregular time series of numeric vectors/matrices and
+ factors. zoo's key design goals are independence of a particular
+ index/date/time class and consistency with ts and base R by providing
+ methods to extend standard generics."""
+
+ homepage = "http://zoo.r-forge.r-project.org/"
+ url = "https://cran.r-project.org/src/contrib/zoo_1.7-13.tar.gz"
+ list_url = "https://cran.r-project.org/src/contrib/Archive/zoo"
+
+ version('1.7-13', '99521dfa4c668e692720cefcc5a1bf30')
+
+ 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)