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Merge branch 'features/cantera' of https://github.com/adamjstewart/spack into adamjstewart-features/cantera

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This commit is contained in:
Todd Gamblin 2016-06-20 23:53:48 -07:00
commit f18e1a9371
9 changed files with 748 additions and 70 deletions
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28
lib/spack/spack/build_environment.py
View file

@ -63,7 +63,7 @@
import spack
from spack.environment import EnvironmentModifications, validate
from spack.util.environment import *
from spack.util.executable import Executable, which
from spack.util.executable import Executable
#
# This can be set by the user to globally disable parallel builds.
@ -130,8 +130,13 @@ def load_module(mod):
text = modulecmd('show', mod, output=str, error=str).split()
for i, word in enumerate(text):
if word == 'conflict':
<<<<<<< HEAD
exec(compile(modulecmd('unload', text[
i + 1], output=str, error=str), '<string>', 'exec'))
=======
exec(compile(modulecmd('unload', text[i + 1], output=str,
error=str), '<string>', 'exec'))
>>>>>>> aa86488fd9809ced16704e4bd4d607c89d6dda75
# Load the module now that there are no conflicts
load = modulecmd('load', mod, output=str, error=str)
exec(compile(load, '<string>', 'exec'))
@ -239,8 +244,13 @@ def set_build_environment_variables(pkg, env):
# handled by putting one in the <build_env_path>/case-insensitive
# directory. Add that to the path too.
env_paths = []
<<<<<<< HEAD
compiler_specific = join_path(spack.build_env_path, pkg.compiler.name)
for item in [spack.build_env_path, compiler_specific]:
=======
for item in [spack.build_env_path, join_path(spack.build_env_path,
pkg.compiler.name)]:
>>>>>>> aa86488fd9809ced16704e4bd4d607c89d6dda75
env_paths.append(item)
ci = join_path(item, 'case-insensitive')
if os.path.isdir(ci):
@ -270,8 +280,13 @@ def set_build_environment_variables(pkg, env):
env.unset('DYLD_LIBRARY_PATH')
# Add bin directories from dependencies to the PATH for the build.
<<<<<<< HEAD
bin_dirs = reversed(
filter(os.path.isdir, ['%s/bin' % prefix for prefix in dep_prefixes]))
=======
bin_dirs = reversed(filter(os.path.isdir,
['%s/bin' % prefix for prefix in dep_prefixes]))
>>>>>>> aa86488fd9809ced16704e4bd4d607c89d6dda75
for item in bin_dirs:
env.prepend_path('PATH', item)
@ -286,7 +301,10 @@ def set_build_environment_variables(pkg, env):
for directory in ('lib', 'lib64', 'share'):
pcdir = join_path(pre, directory, 'pkgconfig')
if os.path.isdir(pcdir):
<<<<<<< HEAD
# pkg_config_dirs.append(pcdir)
=======
>>>>>>> aa86488fd9809ced16704e4bd4d607c89d6dda75
env.prepend_path('PKG_CONFIG_PATH', pcdir)
if pkg.spec.architecture.target.module_name:
@ -299,7 +317,7 @@ def set_module_variables_for_package(pkg, module):
"""Populate the module scope of install() with some useful functions.
This makes things easier for package writers.
"""
# number of jobs spack will to build with.
# number of jobs spack will build with.
jobs = multiprocessing.cpu_count()
if not pkg.parallel:
jobs = 1
@ -312,6 +330,7 @@ def set_module_variables_for_package(pkg, module):
# TODO: make these build deps that can be installed if not found.
m.make = MakeExecutable('make', jobs)
m.gmake = MakeExecutable('gmake', jobs)
m.scons = MakeExecutable('scons', jobs)
# easy shortcut to os.environ
m.env = os.environ
@ -325,6 +344,7 @@ def set_module_variables_for_package(pkg, module):
# TODO: Currently, everything is a link dependency, but tools like
# TODO: this shouldn't be.
m.cmake = Executable('cmake')
m.ctest = Executable('ctest')
# standard CMake arguments
m.std_cmake_args = ['-DCMAKE_INSTALL_PREFIX=%s' % pkg.prefix,
@ -382,9 +402,13 @@ def get_rpaths(pkg):
def parent_class_modules(cls):
<<<<<<< HEAD
"""
Get list of super class modules that are all descend from spack.Package
"""
=======
"""Get list of super class modules that all descend from spack.Package"""
>>>>>>> aa86488fd9809ced16704e4bd4d607c89d6dda75
if not issubclass(cls, spack.Package) or issubclass(spack.Package, cls):
return []
result = []

183
lib/spack/spack/cmd/create.py
View file

@ -1,4 +1,3 @@
_copyright = """\
##############################################################################
# Copyright (c) 2013-2016, Lawrence Livermore National Security, LLC.
# Produced at the Lawrence Livermore National Laboratory.
@ -23,10 +22,8 @@
# 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 string
import os
import hashlib
import re
from ordereddict_backport import OrderedDict
@ -41,16 +38,37 @@
from spack.spec import Spec
from spack.util.naming import *
from spack.repository import Repo, RepoError
import spack.util.crypto as crypto
from spack.util.executable import which
from spack.stage import Stage
description = "Create a new package file from an archive URL"
package_template = string.Template(
_copyright + """
package_template = string.Template("""\
##############################################################################
# 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
##############################################################################
#
# This is a template package file for Spack. We've put "FIXME"
# next to all the things you'll want to change. Once you've handled
@ -68,24 +86,21 @@
#
from spack import *
class ${class_name}(Package):
""\"FIXME: put a proper description of your package here.""\"
# FIXME: add a proper url for your package's homepage here.
""\"FIXME: Put a proper description of your package here.""\"
# FIXME: Add a proper url for your package's homepage here.
homepage = "http://www.example.com"
url = "${url}"
${versions}
${extends}
# FIXME: Add dependencies if this package requires them.
# depends_on("foo")
def install(self, spec, prefix):
# FIXME: Modify the configure line to suit your build system here.
${configure}
# FIXME: Add logic to build and install here
make()
make("install")
${install}
""")
@ -120,41 +135,95 @@ def setup_parser(subparser):
class ConfigureGuesser(object):
def __call__(self, stage):
"""Try to guess the type of build system used by the project, and return
an appropriate configure line.
"""
autotools = "configure('--prefix=%s' % prefix)"
cmake = "cmake('.', *std_cmake_args)"
python = "python('setup.py', 'install', '--prefix=%s' % prefix)"
r = "R('CMD', 'INSTALL', '--library=%s' % self.module.r_lib_dir, '%s' % self.stage.archive_file)"
"""Try to guess the type of build system used by the project.
Set the appropriate default installation instructions and any
necessary extensions for Python and R."""
config_lines = ((r'/configure$', 'autotools', autotools),
(r'/CMakeLists.txt$', 'cmake', cmake),
(r'/setup.py$', 'python', python),
(r'/NAMESPACE$', 'r', r))
# Default installation instructions
installDict = {
'autotools': """\
# FIXME: Modify the configure line to suit your build system here.
configure('--prefix={0}'.format(prefix))
# Peek inside the tarball.
tar = which('tar')
output = tar(
"--exclude=*/*/*", "-tf", stage.archive_file, output=str)
lines = output.split("\n")
# FIXME: Add logic to build and install here.
make()
make('install')""",
# Set the configure line to the one that matched.
for pattern, bs, cl in config_lines:
if any(re.search(pattern, l) for l in lines):
config_line = cl
build_system = bs
break
'cmake': """\
with working_dir('spack-build', create=True):
# FIXME: Modify the cmake line to suit your build system here.
cmake('..', *std_cmake_args)
# FIXME: Add logic to build and install here.
make()
make('install')""",
'scons': """\
# FIXME: Add logic to build and install here.
scons('prefix={0}'.format(prefix))
scons('install')""",
'python': """\
# FIXME: Add logic to build and install here.
python('setup.py', 'install', '--prefix={0}'.format(prefix))""",
'R': """\
# FIXME: Add logic to build and install here.
R('CMD', 'INSTALL', '--library={0}'.format(self.module.r_lib_dir),
self.stage.source_path)""",
'unknown': """\
# FIXME: Unknown build system
make()
make('install')"""
}
# A list of clues that give us an idea of the build system a package
# uses. If the regular expression matches a file contained in the
# archive, the corresponding build system is assumed.
clues = [
(r'/configure$', 'autotools'),
(r'/CMakeLists.txt$', 'cmake'),
(r'/SConstruct$', 'scons'),
(r'/setup.py$', 'python'),
(r'/NAMESPACE$', 'R')
]
# Peek inside the compressed file.
if stage.archive_file.endswith('.zip'):
try:
unzip = which('unzip')
output = unzip('-l', stage.archive_file, output=str)
except:
output = ''
else:
# None matched -- just put both, with cmake commented out
config_line = "# FIXME: Spack couldn't guess one, so here are some options:\n"
config_line += " # " + autotools + "\n"
config_line += " # " + cmake
build_system = 'unknown'
try:
tar = which('tar')
output = tar('--exclude=*/*/*', '-tf',
stage.archive_file, output=str)
except:
output = ''
lines = output.split('\n')
# Determine the build system based on the files contained
# in the archive.
build_system = 'unknown'
for pattern, bs in clues:
if any(re.search(pattern, l) for l in lines):
build_system = bs
self.configure = config_line
self.build_system = build_system
# Set the appropriate default installation instructions
self.install = installDict[build_system]
# Set any necessary extensions for Python and R
extensions = ''
if build_system in ['python', 'R']:
extensions = "\n extends('{0}')\n".format(build_system)
self.extends = extensions
def guess_name_and_version(url, args):
# Try to deduce name and version of the new package from the URL
@ -168,7 +237,7 @@ def guess_name_and_version(url, args):
else:
try:
name = spack.url.parse_name(url, version)
except spack.url.UndetectableNameError, e:
except spack.url.UndetectableNameError:
# Use a user-supplied name if one is present
tty.die("Couldn't guess a name for this package. Try running:", "",
"spack create --name <name> <url>")
@ -182,7 +251,8 @@ def guess_name_and_version(url, args):
def find_repository(spec, args):
# figure out namespace for spec
if spec.namespace and args.namespace and spec.namespace != args.namespace:
tty.die("Namespaces '%s' and '%s' do not match." % (spec.namespace, args.namespace))
tty.die("Namespaces '%s' and '%s' do not match." % (spec.namespace,
args.namespace))
if not spec.namespace and args.namespace:
spec.namespace = args.namespace
@ -193,8 +263,8 @@ def find_repository(spec, args):
try:
repo = Repo(repo_path)
if spec.namespace and spec.namespace != repo.namespace:
tty.die("Can't create package with namespace %s in repo with namespace %s"
% (spec.namespace, repo.namespace))
tty.die("Can't create package with namespace %s in repo with "
"namespace %s" % (spec.namespace, repo.namespace))
except RepoError as e:
tty.die(str(e))
else:
@ -214,11 +284,7 @@ def find_repository(spec, args):
def fetch_tarballs(url, name, version):
"""Try to find versions of the supplied archive by scraping the web.
Prompts the user to select how many to download if many are found.
"""
Prompts the user to select how many to download if many are found."""
versions = spack.util.web.find_versions_of_archive(url)
rkeys = sorted(versions.keys(), reverse=True)
versions = OrderedDict(zip(rkeys, (versions[v] for v in rkeys)))
@ -226,11 +292,11 @@ def fetch_tarballs(url, name, version):
archives_to_fetch = 1
if not versions:
# If the fetch failed for some reason, revert to what the user provided
versions = { version : url }
versions = {version: url}
elif len(versions) > 1:
tty.msg("Found %s versions of %s:" % (len(versions), name),
*spack.cmd.elide_list(
["%-10s%s" % (v,u) for v, u in versions.iteritems()]))
["%-10s%s" % (v, u) for v, u in versions.iteritems()]))
print
archives_to_fetch = tty.get_number(
"Include how many checksums in the package file?",
@ -277,7 +343,7 @@ def create(parser, args):
name = 'py-%s' % name
# Prepend 'r-' to R package names, by convention.
if guesser.build_system == 'r':
if guesser.build_system == 'R':
name = 'r-%s' % name
# Create a directory for the new package.
@ -292,10 +358,11 @@ def create(parser, args):
pkg_file.write(
package_template.substitute(
name=name,
configure=guesser.configure,
class_name=mod_to_class(name),
url=url,
versions=make_version_calls(ver_hash_tuples)))
versions=make_version_calls(ver_hash_tuples),
extends=guesser.extends,
install=guesser.install))
# If everything checks out, go ahead and edit.
spack.editor(pkg_path)

197
var/spack/repos/builtin/packages/cantera/package.py Normal file
View file

@ -0,0 +1,197 @@
##############################################################################
# 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 *
import os
class Cantera(Package):
"""Cantera is a suite of object-oriented software tools for problems
involving chemical kinetics, thermodynamics, and/or transport processes."""
homepage = "http://www.cantera.org/docs/sphinx/html/index.html"
url = "https://github.com/Cantera/cantera/archive/v2.2.1.tar.gz"
version('2.2.1', '9d1919bdef39ddec54485fc8a741a3aa')
variant('lapack', default=True, description='Build with external BLAS/LAPACK libraries')
variant('threadsafe', default=True, description='Build threadsafe, requires Boost')
variant('sundials', default=True, description='Build with external Sundials')
variant('python', default=False, description='Build the Cantera Python module')
variant('matlab', default=False, description='Build the Cantera Matlab toolbox')
# Required dependencies
depends_on('scons')
# Recommended dependencies
depends_on('blas', when='+lapack')
depends_on('lapack', when='+lapack')
depends_on('boost', when='+threadsafe')
depends_on('sundials', when='+sundials') # must be compiled with -fPIC
# Python module dependencies
extends('python', when='+python')
depends_on('py-numpy', when='+python')
depends_on('py-scipy', when='+python')
depends_on('py-cython', when='+python')
depends_on('py-3to2', when='+python')
# TODO: these "when" specs don't actually work
# depends_on('py-unittest2', when='+python^python@2.6')
# depends_on('py-unittest2py3k', when='+python^python@3.1')
# Matlab toolbox dependencies
# TODO: add Matlab package
# TODO: allow packages to extend multiple other packages
# extends('matlab', when='+matlab')
def install(self, spec, prefix):
# Required options
options = [
'prefix={0}'.format(prefix),
'CC={0}'.format(os.environ['CC']),
'CXX={0}'.format(os.environ['CXX']),
'F77={0}'.format(os.environ['F77']),
'FORTRAN={0}'.format(os.environ['FC']),
'cc_flags=-fPIC',
# Allow Spack environment variables to propagate through to SCons
'env_vars=all'
]
# BLAS/LAPACK support
if '+lapack' in spec:
options.extend([
'blas_lapack_libs=lapack,blas',
'blas_lapack_dir={0}'.format(spec['lapack'].prefix.lib)
])
# Threadsafe build, requires Boost
if '+threadsafe' in spec:
options.extend([
'build_thread_safe=yes',
'boost_inc_dir={0}'.format(spec['boost'].prefix.include),
'boost_lib_dir={0}'.format(spec['boost'].prefix.lib),
'boost_thread_lib=boost_thread-mt,boost_system-mt'
])
else:
options.append('build_thread_safe=no')
# Sundials support
if '+sundials' in spec:
options.extend([
'use_sundials=y',
'sundials_include={0}'.format(spec['sundials'].prefix.include),
'sundials_libdir={0}'.format(spec['sundials'].prefix.lib),
'sundials_license={0}'.format(
join_path(spec['sundials'].prefix, 'LICENSE'))
])
else:
options.append('use_sundials=n')
# Python module
if '+python' in spec:
options.extend([
'python_package=full',
'python_cmd={0}'.format(
join_path(spec['python'].prefix.bin, 'python')),
'python_array_home={0}'.format(spec['py-numpy'].prefix)
])
if spec['python'].satisfies('@3'):
options.extend([
'python3_package=y',
'python3_cmd={0}'.format(
join_path(spec['python'].prefix.bin, 'python')),
'python3_array_home={0}'.format(spec['py-numpy'].prefix)
])
else:
options.append('python3_package=n')
else:
options.append('python_package=none')
options.append('python3_package=n')
# Matlab toolbox
if '+matlab' in spec:
options.extend([
'matlab_toolbox=y',
'matlab_path={0}'.format(spec['matlab'].prefix)
])
else:
options.append('matlab_toolbox=n')
scons('build', *options)
if '+python' in spec:
# Tests will always fail if Python dependencies aren't built
# In addition, 3 of the tests fail when run in parallel
scons('test', parallel=False)
scons('install')
self.filter_compilers()
def filter_compilers(self):
"""Run after install to tell the Makefile and SConstruct files to use
the compilers that Spack built the package with.
If this isn't done, they'll have CC, CXX, F77, and FC set to Spack's
generic cc, c++, f77, and f90. We want them to be bound to whatever
compiler they were built with."""
kwargs = {'ignore_absent': True, 'backup': False, 'string': True}
dirname = os.path.join(self.prefix, 'share/cantera/samples')
cc_files = [
'cxx/rankine/Makefile', 'cxx/NASA_coeffs/Makefile',
'cxx/kinetics1/Makefile', 'cxx/flamespeed/Makefile',
'cxx/combustor/Makefile', 'f77/SConstruct'
]
cxx_files = [
'cxx/rankine/Makefile', 'cxx/NASA_coeffs/Makefile',
'cxx/kinetics1/Makefile', 'cxx/flamespeed/Makefile',
'cxx/combustor/Makefile'
]
f77_files = [
'f77/Makefile', 'f77/SConstruct'
]
fc_files = [
'f90/Makefile', 'f90/SConstruct'
]
for filename in cc_files:
filter_file(os.environ['CC'], self.compiler.cc,
os.path.join(dirname, filename), **kwargs)
for filename in cxx_files:
filter_file(os.environ['CXX'], self.compiler.cxx,
os.path.join(dirname, filename), **kwargs)
for filename in f77_files:
filter_file(os.environ['F77'], self.compiler.f77,
os.path.join(dirname, filename), **kwargs)
for filename in fc_files:
filter_file(os.environ['FC'], self.compiler.fc,
os.path.join(dirname, filename), **kwargs)

40
var/spack/repos/builtin/packages/py-3to2/package.py Normal file
View file

@ -0,0 +1,40 @@
##############################################################################
# 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 Py3to2(Package):
"""lib3to2 is a set of fixers that are intended to backport code written
for Python version 3.x into Python version 2.x."""
homepage = "https://pypi.python.org/pypi/3to2"
url = "https://pypi.python.org/packages/source/3/3to2/3to2-1.1.1.zip"
version('1.1.1', 'cbeed28e350dbdaef86111ace3052824')
extends('python')
def install(self, spec, prefix):
python('setup.py', 'install', '--prefix=%s' % prefix)

41
var/spack/repos/builtin/packages/py-unittest2/package.py Normal file
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@ -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 PyUnittest2(Package):
"""unittest2 is a backport of the new features added to the unittest
testing framework in Python 2.7 and onwards."""
homepage = "https://pypi.python.org/pypi/unittest2"
url = "https://pypi.python.org/packages/source/u/unittest2/unittest2-1.1.0.tar.gz"
version('1.1.0', 'f72dae5d44f091df36b6b513305ea000')
extends('python')
depends_on('py-setuptools')
def install(self, spec, prefix):
python('setup.py', 'install', '--prefix=%s' % prefix)

42
var/spack/repos/builtin/packages/py-unittest2py3k/package.py Normal file
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@ -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 PyUnittest2py3k(Package):
"""unittest2 is a backport of the new features added to the unittest
testing framework in Python 2.7 and 3.2. This is a Python 3 compatible
version of unittest2."""
homepage = "https://pypi.python.org/pypi/unittest2py3k"
url = "https://pypi.python.org/packages/source/u/unittest2py3k/unittest2py3k-0.5.1.tar.gz"
version('0.5.1', '8824ff92044310d9365f90d892bf0f09')
extends('python')
depends_on('py-setuptools')
def install(self, spec, prefix):
python('setup.py', 'install', '--prefix=%s' % prefix)

5
var/spack/repos/builtin/packages/serf/package.py
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@ -28,10 +28,11 @@
class Serf(Package):
"""Apache Serf - a high performance C-based HTTP client library
built upon the Apache Portable Runtime (APR) library"""
homepage = 'https://serf.apache.org/'
url = 'https://archive.apache.org/dist/serf/serf-1.3.8.tar.bz2'
version('1.3.8', '1d45425ca324336ce2f4ae7d7b4cfbc5567c5446')
version('1.3.8', '1d45425ca324336ce2f4ae7d7b4cfbc5567c5446')
depends_on('apr')
depends_on('apr-util')
@ -41,8 +42,6 @@ class Serf(Package):
depends_on('zlib')
def install(self, spec, prefix):
scons = which("scons")
options = ['PREFIX=%s' % prefix]
options.append('APR=%s' % spec['apr'].prefix)
options.append('APU=%s' % spec['apr-util'].prefix)

148
var/spack/repos/builtin/packages/sundials/package.py
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@ -23,17 +23,151 @@
# Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
##############################################################################
from spack import *
import os
class Sundials(Package):
"""SUNDIALS (SUite of Nonlinear and DIfferential/ALgebraic equation Solvers)"""
"""SUNDIALS (SUite of Nonlinear and DIfferential/ALgebraic equation
Solvers)"""
homepage = "http://computation.llnl.gov/casc/sundials/"
url = "http://computation.llnl.gov/casc/sundials/download/code/sundials-2.5.0.tar.gz"
url = "http://computation.llnl.gov/projects/sundials-suite-nonlinear-differential-algebraic-equation-solvers/download/sundials-2.6.2.tar.gz"
version('2.5.0', 'aba8b56eec600de3109cfb967aa3ba0f')
version('2.6.2', '3deeb0ede9f514184c6bd83ecab77d95')
depends_on("mpi")
variant('mpi', default=True, description='Enable MPI support')
variant('lapack', default=True, description='Build with external BLAS/LAPACK libraries')
variant('klu', default=False, description='Build with SuiteSparse KLU libraries')
variant('superlu', default=False, description='Build with SuperLU_MT libraries')
variant('openmp', default=False, description='Enable OpenMP support')
variant('pthread', default=True, description='Enable POSIX threads support')
depends_on('mpi', when='+mpi')
depends_on('blas', when='+lapack')
depends_on('lapack', when='+lapack')
depends_on('suite-sparse', when='+klu')
depends_on('superlu-mt+openmp', when='+superlu+openmp')
depends_on('superlu-mt+pthread', when='+superlu+pthread')
def install(self, spec, prefix):
configure("--prefix=%s" % prefix)
make()
make("install")
cmake_args = std_cmake_args[:]
cmake_args.extend([
'-DBUILD_SHARED_LIBS=ON',
'-DCMAKE_C_FLAGS=-fPIC',
'-DCMAKE_Fortran_FLAGS=-fPIC',
'-DEXAMPLES_ENABLE=ON',
'-DEXAMPLES_INSTALL=ON',
'-DFCMIX_ENABLE=ON'
])
# MPI support
if '+mpi' in spec:
cmake_args.extend([
'-DMPI_ENABLE=ON',
'-DMPI_MPICC={0}'.format(spec['mpi'].mpicc),
'-DMPI_MPIF77={0}'.format(spec['mpi'].mpif77)
])
else:
cmake_args.append('-DMPI_ENABLE=OFF')
# Building with LAPACK and BLAS
if '+lapack' in spec:
cmake_args.extend([
'-DLAPACK_ENABLE=ON',
'-DLAPACK_LIBRARIES={0};{1}'.format(
spec['lapack'].lapack_shared_lib,
spec['blas'].blas_shared_lib
)
])
else:
cmake_args.append('-DLAPACK_ENABLE=OFF')
# Building with KLU
if '+klu' in spec:
cmake_args.extend([
'-DKLU_ENABLE=ON',
'-DKLU_INCLUDE_DIR={0}'.format(
spec['suite-sparse'].prefix.include),
'-DKLU_LIBRARY_DIR={0}'.format(
spec['suite-sparse'].prefix.lib)
])
else:
cmake_args.append('-DKLU_ENABLE=OFF')
# Building with SuperLU_MT
if '+superlu' in spec:
cmake_args.extend([
'-DSUPERLUMT_ENABLE=ON',
'-DSUPERLUMT_INCLUDE_DIR={0}'.format(
spec['superlu-mt'].prefix.include),
'-DSUPERLUMT_LIBRARY_DIR={0}'.format(
spec['superlu-mt'].prefix.lib)
])
if '+openmp' in spec:
cmake_args.append('-DSUPERLUMT_THREAD_TYPE=OpenMP')
elif '+pthread' in spec:
cmake_args.append('-DSUPERLUMT_THREAD_TYPE=Pthread')
else:
msg = 'You must choose either +openmp or +pthread when '
msg += 'building with SuperLU_MT'
raise RuntimeError(msg)
else:
cmake_args.append('-DSUPERLUMT_ENABLE=OFF')
# OpenMP support
if '+openmp' in spec:
cmake_args.append('-DOPENMP_ENABLE=ON')
else:
cmake_args.append('-DOPENMP_ENABLE=OFF')
# POSIX threads support
if '+pthread' in spec:
cmake_args.append('-DPTHREAD_ENABLE=ON')
else:
cmake_args.append('-DPTHREAD_ENABLE=OFF')
with working_dir('build', create=True):
cmake('..', *cmake_args)
make()
make('install')
install('LICENSE', prefix)
self.filter_compilers()
def filter_compilers(self):
"""Run after install to tell the Makefiles to use
the compilers that Spack built the package with.
If this isn't done, they'll have CC, CPP, and F77 set to
Spack's generic cc and f77. We want them to be bound to
whatever compiler they were built with."""
kwargs = {'ignore_absent': True, 'backup': False, 'string': True}
dirname = os.path.join(self.prefix, 'examples')
cc_files = [
'arkode/C_serial/Makefile', 'arkode/C_parallel/Makefile',
'cvode/serial/Makefile', 'cvode/parallel/Makefile',
'cvodes/serial/Makefile', 'cvodes/parallel/Makefile',
'ida/serial/Makefile', 'ida/parallel/Makefile',
'idas/serial/Makefile', 'idas/parallel/Makefile',
'kinsol/serial/Makefile', 'kinsol/parallel/Makefile',
'nvector/serial/Makefile', 'nvector/parallel/Makefile',
'nvector/pthreads/Makefile'
]
f77_files = [
'arkode/F77_serial/Makefile', 'cvode/fcmix_serial/Makefile',
'ida/fcmix_serial/Makefile', 'ida/fcmix_pthreads/Makefile',
'kinsol/fcmix_serial/Makefile'
]
for filename in cc_files:
filter_file(os.environ['CC'], self.compiler.cc,
os.path.join(dirname, filename), **kwargs)
for filename in f77_files:
filter_file(os.environ['F77'], self.compiler.f77,
os.path.join(dirname, filename), **kwargs)

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@ -0,0 +1,134 @@
##############################################################################
# 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 *
import glob
import os
class SuperluMt(Package):
"""SuperLU is a general purpose library for the direct solution of large,
sparse, nonsymmetric systems of linear equations on high performance
machines. SuperLU_MT is designed for shared memory parallel machines."""
homepage = "http://crd-legacy.lbl.gov/~xiaoye/SuperLU/#superlu_mt"
url = "http://crd-legacy.lbl.gov/~xiaoye/SuperLU/superlu_mt_3.1.tar.gz"
version('3.1', '06ac62f1b4b7d17123fffa0d0c315e91')
variant('blas', default=True, description='Build with external BLAS library')
# Must choose one or the other
variant('openmp', default=False, description='Build with OpenMP support')
variant('pthread', default=True, description='Build with POSIX threads support')
# NOTE: must link with a single-threaded BLAS library
depends_on('blas', when='+blas')
# Cannot be built in parallel
parallel = False
def configure(self, spec):
# Validate chosen variants
if '+openmp' in spec and '+pthread' in spec:
msg = 'You cannot choose both +openmp and +pthread'
raise RuntimeError(msg)
if '~openmp' in spec and '~pthread' in spec:
msg = 'You must choose either +openmp or +pthread'
raise RuntimeError(msg)
# List of configuration options
config = []
# The machine (platform) identifier to append to the library names
if '+openmp' in spec:
# OpenMP
config.extend([
'PLAT = _OPENMP',
'TMGLIB = libtmglib.a',
'MPLIB = {0}'.format(self.compiler.openmp_flag),
'CFLAGS = {0}'.format(self.compiler.openmp_flag),
'FFLAGS = {0}'.format(self.compiler.openmp_flag)
])
elif '+pthread' in spec:
# POSIX threads
config.extend([
'PLAT = _PTHREAD',
'TMGLIB = libtmglib$(PLAT).a',
'MPLIB = -lpthread'
])
# The BLAS library
# NOTE: must link with a single-threaded BLAS library
if '+blas' in spec:
config.extend([
'BLASDEF = -DUSE_VENDOR_BLAS',
'BLASLIB = -L{0} -lblas'.format(spec['blas'].prefix.lib)
])
else:
config.append('BLASLIB = ../lib/libblas$(PLAT).a')
# Generic options
config.extend([
# The name of the libraries to be created/linked to
'SUPERLULIB = libsuperlu_mt$(PLAT).a',
'MATHLIB = -lm',
# The archiver and the flag(s) to use when building archives
'ARCH = ar',
'ARCHFLAGS = cr',
'RANLIB = {0}'.format('ranlib' if which('ranlib') else 'echo'),
# Definitions used by CPP
'PREDEFS = -D_$(PLAT)',
# Compilers and flags
'CC = {0}'.format(os.environ['CC']),
'CFLAGS += $(PREDEFS) -D_LONGINT',
'NOOPTS = -O0',
'FORTRAN = {0}'.format(os.environ['FC']),
'LOADER = {0}'.format(os.environ['CC']),
# C preprocessor defs for compilation
'CDEFS = -DAdd_'
])
# Write configuration options to include file
with open('make.inc', 'w') as inc:
for option in config:
inc.write('{0}\n'.format(option))
def install(self, spec, prefix):
# Set up make include file manually
self.configure(spec)
# BLAS needs to be compiled separately if using internal BLAS library
if '+blas' not in spec:
make('blaslib')
make()
# Install manually
install_tree('lib', prefix.lib)
headers = glob.glob(join_path('SRC', '*.h'))
mkdir(prefix.include)
for h in headers:
install(h, prefix.include)