131 lines
5.0 KiB
Python
131 lines
5.0 KiB
Python
##############################################################################
|
|
# 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
|
|
##############################################################################
|
|
import functools
|
|
import glob
|
|
import inspect
|
|
import os
|
|
import re
|
|
from contextlib import closing
|
|
|
|
import spack
|
|
from llnl.util.lang import match_predicate
|
|
from spack import *
|
|
from spack.util.environment import *
|
|
|
|
|
|
class R(Package):
|
|
"""
|
|
R is 'GNU S', a freely available language and environment for statistical computing and graphics which provides a
|
|
wide variety of statistical and graphical techniques: linear and nonlinear modelling, statistical tests, time series
|
|
analysis, classification, clustering, etc. Please consult the R project homepage for further information.
|
|
"""
|
|
homepage = "https://www.r-project.org"
|
|
url = "http://cran.cnr.berkeley.edu/src/base/R-3/R-3.1.2.tar.gz"
|
|
|
|
extendable = True
|
|
|
|
version('3.2.3', '1ba3dac113efab69e706902810cc2970')
|
|
version('3.2.2', '57cef5c2e210a5454da1979562a10e5b')
|
|
version('3.2.1', 'c2aac8b40f84e08e7f8c9068de9239a3')
|
|
version('3.2.0', '66fa17ad457d7e618191aa0f52fc402e')
|
|
version('3.1.3', '53a85b884925aa6b5811dfc361d73fc4')
|
|
version('3.1.2', '3af29ec06704cbd08d4ba8d69250ae74')
|
|
|
|
variant('external-lapack', default=False, description='Links to externally installed BLAS/LAPACK')
|
|
|
|
# Virtual dependencies
|
|
depends_on('blas', when='+external-lapack')
|
|
depends_on('lapack', when='+external-lapack')
|
|
|
|
# Concrete dependencies
|
|
depends_on('readline')
|
|
depends_on('ncurses')
|
|
depends_on('icu')
|
|
depends_on('glib')
|
|
depends_on('zlib')
|
|
depends_on('libtiff')
|
|
depends_on('jpeg')
|
|
depends_on('cairo')
|
|
depends_on('pango')
|
|
depends_on('freetype')
|
|
depends_on('tcl')
|
|
depends_on('tk')
|
|
|
|
def install(self, spec, prefix):
|
|
rlibdir = join_path(prefix, 'rlib')
|
|
options = ['--prefix=%s' % prefix,
|
|
'--libdir=%s' % rlibdir,
|
|
'--enable-R-shlib',
|
|
'--enable-BLAS-shlib',
|
|
'--enable-R-framework=no']
|
|
if '+external-lapack' in spec:
|
|
options.extend(['--with-blas', '--with-lapack'])
|
|
|
|
configure(*options)
|
|
make()
|
|
make('install')
|
|
|
|
# ========================================================================
|
|
# Set up environment to make install easy for R extensions.
|
|
# ========================================================================
|
|
|
|
@property
|
|
def r_lib_dir(self):
|
|
return os.path.join('rlib', 'R', 'library')
|
|
|
|
def setup_dependent_environment(self, spack_env, run_env, extension_spec):
|
|
# Set R_LIBS to include the library dir for the
|
|
# extension and any other R extensions it depends on.
|
|
r_libs_path = []
|
|
for d in extension_spec.traverse():
|
|
if d.package.extends(self.spec):
|
|
r_libs_path.append(os.path.join(d.prefix, self.r_lib_dir))
|
|
|
|
r_libs_path = ':'.join(r_libs_path)
|
|
spack_env.set('R_LIBS', r_libs_path)
|
|
|
|
# For run time environment set only the path for extension_spec and prepend it to R_LIBS
|
|
if extension_spec.package.extends(self.spec):
|
|
run_env.prepend_path('R_LIBS', os.path.join(extension_spec.prefix, self.r_lib_dir))
|
|
|
|
|
|
def setup_dependent_package(self, module, ext_spec):
|
|
"""
|
|
Called before R modules' install() methods.
|
|
|
|
In most cases, extensions will only need to have one line::
|
|
|
|
R('CMD', 'INSTALL', '--library=%s' % self.module.r_lib_dir, '%s' % self.stage.archive_file)
|
|
"""
|
|
# R extension builds can have a global R executable function
|
|
module.R = Executable(join_path(self.spec.prefix.bin, 'R'))
|
|
|
|
# Add variable for library directry
|
|
module.r_lib_dir = os.path.join(ext_spec.prefix, self.r_lib_dir)
|
|
|
|
# Make the site packages directory for extensions, if it does not exist already.
|
|
if ext_spec.package.is_extension:
|
|
mkdirp(module.r_lib_dir)
|