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Merge branch 'develop' into eschnett/sympol

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This commit is contained in:
Erik Schnetter
2016-08-23 09:45:46 -04:00
parent e43eaad557 e81f3daa28
commit 64d3f87e60
929 changed files with 28519 additions and 6367 deletions
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2
var/spack/repos/builtin/packages/ImageMagick/package.py
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@@ -51,7 +51,7 @@ class Imagemagick(Package):
url="http://sourceforge.net/projects/imagemagick/files/old-sources/6.x/6.8/ImageMagick-6.8.9-10.tar.gz/download")
depends_on('jpeg')
depends_on('libtool')
depends_on('libtool', type='build')
depends_on('libpng')
depends_on('freetype')
depends_on('fontconfig')

1
var/spack/repos/builtin/packages/LuaJIT/package.py
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@@ -25,6 +25,7 @@
import os
from spack import *
class Luajit(Package):
"""Flast flexible JITed lua"""
homepage = "http://www.luajit.org"

1
var/spack/repos/builtin/packages/Mitos/package.py
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@@ -41,6 +41,7 @@ class Mitos(Package):
depends_on('dyninst@8.2.1:')
depends_on('hwloc')
depends_on('mpi')
depends_on('cmake', type='build')
def install(self, spec, prefix):
with working_dir('spack-build', create=True):

117
var/spack/repos/builtin/packages/R/package.py
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@@ -22,30 +22,25 @@
# 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 *
import shutil
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.
"""
"""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('3.3.1', 'f50a659738b73036e2f5635adbd229c5')
version('3.3.0', '5a7506c8813432d1621c9725e86baf7a')
version('3.2.3', '1ba3dac113efab69e706902810cc2970')
version('3.2.2', '57cef5c2e210a5454da1979562a10e5b')
version('3.2.1', 'c2aac8b40f84e08e7f8c9068de9239a3')
@@ -53,7 +48,8 @@ class R(Package):
version('3.1.3', '53a85b884925aa6b5811dfc361d73fc4')
version('3.1.2', '3af29ec06704cbd08d4ba8d69250ae74')
variant('external-lapack', default=False, description='Links to externally installed BLAS/LAPACK')
variant('external-lapack', default=False,
description='Links to externally installed BLAS/LAPACK')
# Virtual dependencies
depends_on('blas', when='+external-lapack')
@@ -65,6 +61,7 @@ class R(Package):
depends_on('icu')
depends_on('glib')
depends_on('zlib')
depends_on('bzip2')
depends_on('libtiff')
depends_on('jpeg')
depends_on('cairo')
@@ -72,59 +69,107 @@ class R(Package):
depends_on('freetype')
depends_on('tcl')
depends_on('tk')
depends_on('curl')
depends_on('pcre')
depends_on('jdk')
@property
def etcdir(self):
return join_path(prefix, 'rlib', 'R', 'etc')
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']
configure_args = ['--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_args.extend(['--with-blas', '--with-lapack'])
configure(*options)
configure(*configure_args)
make()
make('install')
# Make a copy of Makeconf because it will be needed to properly build R
# dependencies in Spack.
src_makeconf = join_path(self.etcdir, 'Makeconf')
dst_makeconf = join_path(self.etcdir, 'Makeconf.spack')
shutil.copy(src_makeconf, dst_makeconf)
self.filter_compilers(spec, prefix)
def filter_compilers(self, spec, prefix):
"""Run after install to tell the configuration files and Makefiles
to use the compilers that Spack built the package with.
If this isn't done, they'll have CC and CXX set to Spack's generic
cc and c++. We want them to be bound to whatever compiler
they were built with."""
kwargs = {'ignore_absent': True, 'backup': False, 'string': True}
filter_file(env['CC'], self.compiler.cc,
join_path(self.etcdir, 'Makeconf'), **kwargs)
filter_file(env['CXX'], self.compiler.cxx,
join_path(self.etcdir, 'Makeconf'), **kwargs)
filter_file(env['F77'], self.compiler.f77,
join_path(self.etcdir, 'Makeconf'), **kwargs)
filter_file(env['FC'], self.compiler.fc,
join_path(self.etcdir, 'Makeconf'), **kwargs)
# ========================================================================
# Set up environment to make install easy for R extensions.
# ========================================================================
@property
def r_lib_dir(self):
return os.path.join('rlib', 'R', 'library')
return join_path('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():
for d in extension_spec.traverse(deptype=nolink, deptype_query='run'):
if d.package.extends(self.spec):
r_libs_path.append(os.path.join(d.prefix, self.r_lib_dir))
r_libs_path.append(join_path(d.prefix, self.r_lib_dir))
r_libs_path = ':'.join(r_libs_path)
spack_env.set('R_LIBS', r_libs_path)
spack_env.set('R_MAKEVARS_SITE',
join_path(self.etcdir, 'Makeconf.spack'))
# For run time environment set only the path for extension_spec and prepend it to R_LIBS
# Use the number of make_jobs set in spack. The make program will
# determine how many jobs can actually be started.
spack_env.set('MAKEFLAGS', '-j{0}'.format(make_jobs))
# 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))
run_env.prepend_path('R_LIBS', join_path(
extension_spec.prefix, self.r_lib_dir))
def setup_environment(self, spack_env, run_env):
run_env.prepend_path('LIBRARY_PATH',
join_path(self.prefix, 'rlib', 'R', 'lib'))
run_env.prepend_path('LD_LIBRARY_PATH',
join_path(self.prefix, 'rlib', 'R', 'lib'))
run_env.prepend_path('CPATH',
join_path(self.prefix, 'rlib', 'R', 'include'))
def setup_dependent_package(self, module, ext_spec):
"""
Called before R modules' install() methods.
"""Called before R modules' install() methods. In most cases,
extensions will only need to have one line:
R('CMD', 'INSTALL', '--library={0}'.format(self.module.r_lib_dir),
self.stage.source_path)"""
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)
module.r_lib_dir = join_path(ext_spec.prefix, self.r_lib_dir)
# Make the site packages directory for extensions, if it does not exist already.
# Make the site packages directory for extensions, if it does not exist
# already.
if ext_spec.package.is_extension:
mkdirp(module.r_lib_dir)

10
var/spack/repos/builtin/packages/SAMRAI/package.py
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@@ -24,12 +24,14 @@
##############################################################################
from spack import *
class Samrai(Package):
"""SAMRAI (Structured Adaptive Mesh Refinement Application Infrastructure)
is an object-oriented C++ software library enables exploration of numerical,
algorithmic, parallel computing, and software issues associated with applying
structured adaptive mesh refinement (SAMR) technology in large-scale parallel
application development.
is an object-oriented C++ software library enables exploration of
numerical, algorithmic, parallel computing, and software issues
associated with applying structured adaptive mesh refinement
(SAMR) technology in large-scale parallel application development.
"""
homepage = "https://computation.llnl.gov/project/SAMRAI/"
url = "https://computation.llnl.gov/project/SAMRAI/download/SAMRAI-v3.9.1.tar.gz"

51
var/spack/repos/builtin/packages/ack/package.py Normal file
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@@ -0,0 +1,51 @@
##############################################################################
# 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 Ack(Package):
"""ack 2.14 is a tool like grep, optimized for programmers.
Designed for programmers with large heterogeneous trees of
source code, ack is written purely in portable Perl 5 and takes
advantage of the power of Perl's regular expressions."""
homepage = "http://beyondgrep.com/"
url = "http://beyondgrep.com/ack-2.14-single-file"
version('2.14', 'e74150a1609d28a70b450ef9cc2ed56b', expand=False)
depends_on('perl')
def install(self, spec, prefix):
mkdirp(prefix.bin)
ack = 'ack-{0}-single-file'.format(self.version)
# rewrite the script's #! line to call the perl dependency
shbang = '#!' + join_path(spec['perl'].prefix.bin, 'perl')
filter_file(r'^#!/usr/bin/env perl', shbang, ack)
install(ack, join_path(prefix.bin, "ack"))
set_executable(join_path(prefix.bin, "ack"))

7
var/spack/repos/builtin/packages/activeharmony/package.py
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@@ -24,8 +24,10 @@
##############################################################################
from spack import *
class Activeharmony(Package):
"""Active Harmony: a framework for auto-tuning (the automated search for values to improve the performance of a target application)."""
"""Active Harmony: a framework for auto-tuning (the automated search for
values to improve the performance of a target application)."""
homepage = "http://www.dyninst.org/harmony"
url = "http://www.dyninst.org/sites/default/files/downloads/harmony/ah-4.5.tar.gz"
@@ -34,6 +36,3 @@ class Activeharmony(Package):
def install(self, spec, prefix):
make("CFLAGS=-O3")
make("install", 'PREFIX=%s' % prefix)
from spack import *

2
var/spack/repos/builtin/packages/adept-utils/package.py
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@@ -24,6 +24,7 @@
##############################################################################
from spack import *
class AdeptUtils(Package):
"""Utility libraries for LLNL performance tools."""
@@ -35,6 +36,7 @@ class AdeptUtils(Package):
depends_on("boost")
depends_on("mpi")
depends_on('cmake', type='build')
def install(self, spec, prefix):
cmake(*std_cmake_args)

41
var/spack/repos/builtin/packages/adios/package.py Normal file
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@@ -0,0 +1,41 @@
import os
from spack import *
class Adios(Package):
"""
The Adaptable IO System (ADIOS) provides a simple,
flexible way for scientists to describe the
data in their code that may need to be written,
read, or processed outside of the running simulation
"""
homepage = "http://www.olcf.ornl.gov/center-projects/adios/"
url = "https://github.com/ornladios/ADIOS/archive/v1.9.0.tar.gz"
version('1.9.0', '310ff02388bbaa2b1c1710ee970b5678')
# Lots of setting up here for this package
# module swap PrgEnv-intel PrgEnv-$COMP
# module load cray-netcdf/4.3.3.1
# module load cray-hdf5/1.8.14
# module load python/2.7.10
depends_on('hdf5')
depends_on('mxml')
def install(self, spec, prefix):
configure_args = ["--prefix=%s" % prefix,
"--with-mxml=%s" % spec['mxml'].prefix,
"--with-hdf5=%s" % spec['hdf5'].prefix,
"--with-netcdf=%s" % os.environ["NETCDF_DIR"],
"--with-infiniband=no",
"MPICC=cc", "MPICXX=CC", "MPIFC=ftn",
"CPPFLAGS=-DMPICH_IGNORE_CXX_SEEK"]
if spec.satisfies('%gcc'):
configure_args.extend(["CC=gcc", "CXX=g++", "FC=gfortran"])
configure(*configure_args)
make()
make("install")

58
var/spack/repos/builtin/packages/adol-c/package.py
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@@ -23,21 +23,24 @@
# Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
##############################################################################
from spack import *
import sys
class AdolC(Package):
"""A package for the automatic differentiation of first and higher derivatives of vector functions in C and C++ programs by operator overloading."""
"""A package for the automatic differentiation of first and higher
derivatives of vector functions in C and C++ programs by operator
overloading."""
homepage = "https://projects.coin-or.org/ADOL-C"
url = "http://www.coin-or.org/download/source/ADOL-C/ADOL-C-2.6.1.tgz"
version('head', svn='https://projects.coin-or.org/svn/ADOL-C/trunk/')
version('2.6.1', '1032b28427d6e399af4610e78c0f087b')
variant('doc', default=True, description='Install documentation')
variant('openmp', default=False, description='Enable OpenMP support')
variant('sparse', default=False, description='Enable sparse drivers')
variant('tests', default=True, description='Build all included examples as a test case')
variant('tests', default=True,
description='Build all included examples as a test case')
patch('openmp_exam.patch')
def install(self, spec, prefix):
@@ -49,10 +52,14 @@ def install(self, spec, prefix):
if '+openmp' in spec:
if spec.satisfies('%gcc'):
make_args.extend([
'--with-openmp-flag=-fopenmp' # FIXME: Is this required? -I <path to omp.h> -L <LLVM OpenMP library path>
# FIXME: Is this required? -I <path to omp.h> -L <LLVM
# OpenMP library path>
'--with-openmp-flag=-fopenmp'
])
else:
raise InstallError("OpenMP flags for compilers other than GCC are not implemented.")
raise InstallError(
"OpenMP flags for compilers other than GCC "
"are not implemented.")
if '+sparse' in spec:
make_args.extend([
@@ -63,7 +70,7 @@ def install(self, spec, prefix):
# whether Adol-C works as expected
if '+tests' in spec:
make_args.extend([
'--enable-docexa', # Documeted examples
'--enable-docexa', # Documeted examples
'--enable-addexa' # Additional examples
])
if '+openmp' in spec:
@@ -74,31 +81,36 @@ def install(self, spec, prefix):
configure(*make_args)
make()
make("install")
# Copy the config.h file, as some packages might require it
source_directory = self.stage.source_path
config_h = join_path(source_directory,'ADOL-C','src','config.h')
install(config_h, join_path(prefix.include,'adolc'))
config_h = join_path(source_directory, 'ADOL-C', 'src', 'config.h')
install(config_h, join_path(prefix.include, 'adolc'))
# Install documentation to {prefix}/share
if '+doc' in spec:
install_tree(join_path('ADOL-C','doc'),
join_path(prefix.share,'doc'))
install_tree(join_path('ADOL-C', 'doc'),
join_path(prefix.share, 'doc'))
# Install examples to {prefix}/share
if '+tests' in spec:
install_tree(join_path('ADOL-C','examples'),
join_path(prefix.share,'examples'))
install_tree(join_path('ADOL-C', 'examples'),
join_path(prefix.share, 'examples'))
# Run some examples that don't require user input
# TODO: Check that bundled examples produce the correct results
with working_dir(join_path(source_directory,'ADOL-C','examples')):
with working_dir(join_path(
source_directory, 'ADOL-C', 'examples')):
Executable('./tapeless_scalar')()
Executable('./tapeless_vector')()
with working_dir(join_path(source_directory,'ADOL-C','examples','additional_examples')):
with working_dir(join_path(
source_directory,
'ADOL-C', 'examples', 'additional_examples')):
Executable('./checkpointing/checkpointing')()
if '+openmp' in spec:
with working_dir(join_path(source_directory,'ADOL-C','examples','additional_examples')):
with working_dir(join_path(
source_directory,
'ADOL-C', 'examples', 'additional_examples')):
Executable('./checkpointing/checkpointing')()

16
var/spack/repos/builtin/packages/antlr/package.py
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@@ -24,8 +24,9 @@
##############################################################################
from spack import *
class Antlr(Package):
homepage = "http://www.antlr.org"
url = "https://github.com/antlr/antlr/tarball/v2.7.7"
@@ -41,22 +42,23 @@ class Antlr(Package):
# CharScanner.hpp must include this line: #include <cstring> or else
# ncap2 will not compile (this tarball is already patched).
version('2.7.7', '914865e853fe8e1e61a9f23d045cb4ab',
# Patched version as described above
url='http://dust.ess.uci.edu/tmp/antlr-2.7.7.tar.gz')
# Unpatched version
# url='http://dust.ess.uci.edu/nco/antlr-2.7.7.tar.gz')
# Patched version as described above
url='http://dust.ess.uci.edu/tmp/antlr-2.7.7.tar.gz')
# Unpatched version
# url='http://dust.ess.uci.edu/nco/antlr-2.7.7.tar.gz')
variant('cxx', default=False, description='Enable ANTLR for C++')
variant('java', default=False, description='Enable ANTLR for Java')
variant('python', default=False, description='Enable ANTLR for Python')
variant('csharp', default=False, description='Enable ANTLR for Csharp')
def install(self, spec, prefix):
# Check for future enabling of variants
for v in ('+java', '+python', '+csharp'):
if v in spec:
raise Error('Illegal variant %s; for now, Spack only knows how to build antlr or antlr+cxx')
raise Error(
('Illegal variant %s; ' % v) + 'for now, '
'Spack only knows how to build antlr or antlr+cxx')
config_args = [
'--prefix=%s' % prefix,

55
var/spack/repos/builtin/packages/ape/package.py Normal file
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@@ -0,0 +1,55 @@
##############################################################################
# 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 Ape(Package):
"""A tool for generating atomic pseudopotentials within a Density-Functional
Theory framework"""
homepage = "http://www.tddft.org/programs/APE/"
url = "http://www.tddft.org/programs/APE/sites/default/files/ape-2.2.1.tar.gz"
version('2.2.1', 'ab81da85bd749c0c136af088c7f9ad58')
depends_on('gsl')
depends_on('libxc')
def install(self, spec, prefix):
args = []
args.extend([
'--prefix=%s' % prefix,
'--with-gsl-prefix=%s' % spec['gsl'].prefix,
'--with-libxc-prefix=%s' % spec['libxc'].prefix
])
if spec.satisfies('%clang') or spec.satisfies('%gcc'):
args.extend([
'FCFLAGS=-O2 -ffree-line-length-none'
])
configure(*args)
make()
make('install')

19
var/spack/repos/builtin/packages/apex/package.py
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@@ -25,6 +25,7 @@
from spack import *
from spack.util.environment import *
class Apex(Package):
homepage = "http://github.com/khuck/xpress-apex"
url = "http://github.com/khuck/xpress-apex/archive/v0.1.tar.gz"
@@ -33,23 +34,23 @@ class Apex(Package):
depends_on("binutils+libiberty")
depends_on("boost@1.54:")
depends_on("cmake@2.8.12:")
depends_on('cmake@2.8.12:', type='build')
depends_on("activeharmony@4.5:")
depends_on("ompt-openmp")
def install(self, spec, prefix):
path=get_path("PATH")
path = get_path("PATH")
path.remove(spec["binutils"].prefix.bin)
path_set("PATH", path)
with working_dir("build", create=True):
cmake('-DBOOST_ROOT=%s' % spec['boost'].prefix,
'-DUSE_BFD=TRUE',
'-DBFD_ROOT=%s' % spec['binutils'].prefix,
'-DUSE_ACTIVEHARMONY=TRUE',
'-DACTIVEHARMONY_ROOT=%s' % spec['activeharmony'].prefix,
'-DUSE_OMPT=TRUE',
'-DOMPT_ROOT=%s' % spec['ompt-openmp'].prefix,
'..', *std_cmake_args)
'-DUSE_BFD=TRUE',
'-DBFD_ROOT=%s' % spec['binutils'].prefix,
'-DUSE_ACTIVEHARMONY=TRUE',
'-DACTIVEHARMONY_ROOT=%s' % spec['activeharmony'].prefix,
'-DUSE_OMPT=TRUE',
'-DOMPT_ROOT=%s' % spec['ompt-openmp'].prefix,
'..', *std_cmake_args)
make()
make("install")

1
var/spack/repos/builtin/packages/apr-util/package.py
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@@ -24,6 +24,7 @@
##############################################################################
from spack import *
class AprUtil(Package):
"""Apache Portable Runtime Utility"""
homepage = 'https://apr.apache.org/'

1
var/spack/repos/builtin/packages/apr/package.py
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@@ -24,6 +24,7 @@
##############################################################################
from spack import *
class Apr(Package):
"""Apache portable runtime."""
homepage = 'https://apr.apache.org/'

69
var/spack/repos/builtin/packages/armadillo/package.py Normal file
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@@ -0,0 +1,69 @@
##############################################################################
# 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 Armadillo(Package):
"""Armadillo is a high quality linear algebra library (matrix maths)
for the C++ language, aiming towards a good balance between speed and
ease of use."""
homepage = "http://arma.sourceforge.net/"
url = "http://sourceforge.net/projects/arma/files/armadillo-7.200.1.tar.xz"
version('7.200.2', 'b21585372d67a8876117fd515d8cf0a2')
version('7.200.1', 'ed86d6df0058979e107502e1fe3e469e')
variant('hdf5', default=False, description='Include HDF5 support')
depends_on('cmake@2.8:', type='build')
depends_on('arpack-ng') # old arpack causes undefined symbols
depends_on('blas')
depends_on('lapack')
depends_on('superlu@5.2:')
depends_on('hdf5', when='+hdf5')
def install(self, spec, prefix):
cmake_args = [
# ARPACK support
'-DARPACK_LIBRARY={0}/libarpack.{1}'.format(
spec['arpack-ng'].prefix.lib, dso_suffix),
# BLAS support
'-DBLAS_LIBRARY={0}'.format(spec['blas'].blas_shared_lib),
# LAPACK support
'-DLAPACK_LIBRARY={0}'.format(spec['lapack'].lapack_shared_lib),
# SuperLU support
'-DSuperLU_INCLUDE_DIR={0}'.format(spec['superlu'].prefix.include),
'-DSuperLU_LIBRARY={0}/libsuperlu.a'.format(
spec['superlu'].prefix.lib64),
# HDF5 support
'-DDETECT_HDF5={0}'.format('ON' if '+hdf5' in spec else 'OFF')
]
cmake_args.extend(std_cmake_args)
cmake('.', *cmake_args)
make()
make('install')

24
var/spack/repos/builtin/packages/arpack-ng/make_install.patch Normal file
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@@ -0,0 +1,24 @@
diff --git a/CMakeLists.txt b/CMakeLists.txt
index 607d221..50426c3 100644
--- a/CMakeLists.txt
+++ b/CMakeLists.txt
@@ -389,3 +389,19 @@ target_link_libraries(bug_1323 arpack ${BLAS_LIBRARIES} ${LAPACK_LIBRARIES})
add_test(bug_1323 Tests/bug_1323)
add_dependencies(check dnsimp_test bug_1315_single bug_1315_double bug_1323)
+
+############################
+# install
+############################
+# 'make install' to the correct location
+install(TARGETS arpack
+ ARCHIVE DESTINATION lib
+ LIBRARY DESTINATION lib
+ RUNTIME DESTINATION bin)
+
+if (MPI)
+ install(TARGETS parpack
+ ARCHIVE DESTINATION lib
+ LIBRARY DESTINATION lib
+ RUNTIME DESTINATION bin)
+endif ()

96
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@@ -27,7 +27,8 @@
class ArpackNg(Package):
"""
ARPACK-NG is a collection of Fortran77 subroutines designed to solve large scale eigenvalue problems.
ARPACK-NG is a collection of Fortran77 subroutines designed to solve large
scale eigenvalue problems.
Important Features:
@@ -38,43 +39,85 @@ class ArpackNg(Package):
Generalized Problems.
* Routines for Banded Matrices - Standard or Generalized Problems.
* Routines for The Singular Value Decomposition.
* Example driver routines that may be used as templates to implement numerous
Shift-Invert strategies for all problem types, data types and precision.
* Example driver routines that may be used as templates to implement
numerous Shift-Invert strategies for all problem types, data types and
precision.
This project is a joint project between Debian, Octave and Scilab in order to
provide a common and maintained version of arpack.
This project is a joint project between Debian, Octave and Scilab in order
to provide a common and maintained version of arpack.
Indeed, no single release has been published by Rice university for the last
few years and since many software (Octave, Scilab, R, Matlab...) forked it and
implemented their own modifications, arpack-ng aims to tackle this by providing
a common repository and maintained versions.
Indeed, no single release has been published by Rice university for the
last few years and since many software (Octave, Scilab, R, Matlab...)
forked it and implemented their own modifications, arpack-ng aims to tackle
this by providing a common repository and maintained versions.
arpack-ng is replacing arpack almost everywhere.
"""
homepage = 'https://github.com/opencollab/arpack-ng'
url = 'https://github.com/opencollab/arpack-ng/archive/3.3.0.tar.gz'
version('3.4.0', 'ae9ca13f2143a7ea280cb0e2fd4bfae4')
version('3.3.0', 'ed3648a23f0a868a43ef44c97a21bad5')
variant('shared', default=True, description='Enables the build of shared libraries')
variant('shared', default=True,
description='Enables the build of shared libraries')
variant('mpi', default=False, description='Activates MPI support')
# The function pdlamch10 does not set the return variable. This is fixed upstream
# The function pdlamch10 does not set the return variable.
# This is fixed upstream
# see https://github.com/opencollab/arpack-ng/issues/34
patch('pdlamch10.patch', when='@3.3:')
patch('pdlamch10.patch', when='@3.3.0')
patch('make_install.patch', when='@3.4.0')
patch('parpack_cmake.patch', when='@3.4.0')
depends_on('blas')
depends_on('lapack')
depends_on('automake')
depends_on('autoconf')
depends_on('libtool@2.4.2:')
depends_on('automake', when='@3.3.0', type='build')
depends_on('autoconf', when='@3.3.0', type='build')
depends_on('libtool@2.4.2:', when='@3.3.0', type='build')
depends_on('cmake@2.8.6:', when='@3.4.0:', type='build')
depends_on('mpi', when='+mpi')
@when('@3.4.0:')
def install(self, spec, prefix):
options = ['-DEXAMPLES=ON']
options.extend(std_cmake_args)
options.append('-DCMAKE_INSTALL_NAME_DIR:PATH=%s/lib' % prefix)
# Make sure we use Spack's blas/lapack:
options.extend([
'-DLAPACK_FOUND=true',
'-DLAPACK_INCLUDE_DIRS=%s' % spec['lapack'].prefix.include,
'-DLAPACK_LIBRARIES=%s' % (
spec['lapack'].lapack_shared_lib if '+shared' in spec else
spec['lapack'].lapack_static_lib),
'-DBLAS_FOUND=true',
'-DBLAS_INCLUDE_DIRS=%s' % spec['blas'].prefix.include,
'-DBLAS_LIBRARIES=%s' % (
spec['blas'].blas_shared_lib if '+shared' in spec else
spec['blas'].blas_static_lib)
])
if '+mpi' in spec:
options.append('-DMPI=ON')
# TODO: -DINTERFACE64=ON
if '+shared' in spec:
options.append('-DBUILD_SHARED_LIBS=ON')
cmake('.', *options)
make()
if self.run_tests:
make('test')
make('install')
@when('@3.3.0')
def install(self, spec, prefix):
# Apparently autotools are not bootstrapped
# TODO: switch to use the CMake build in the next version
# rather than bootstrapping.
which('libtoolize')()
bootstrap = Executable('./bootstrap')
@@ -83,13 +126,26 @@ def install(self, spec, prefix):
if '+mpi' in spec:
options.extend([
'--enable-mpi',
'F77=mpif77' #FIXME: avoid hardcoding MPI wrapper names
'F77=%s' % spec['mpi'].mpif77
])
if '~shared' in spec:
options.append('--enable-shared=no')
if '+shared' in spec:
options.extend([
'--with-blas=%s' % to_link_flags(
spec['blas'].blas_shared_lib),
'--with-lapack=%s' % to_link_flags(
spec['lapack'].lapack_shared_lib)
])
else:
options.extend([
'--with-blas=%s' % spec['blas'].blas_static_lib,
'--with-lapack=%s' % spec['lapack'].lapack_static_lib,
'--enable-shared=no'
])
bootstrap()
configure(*options)
make()
if self.run_tests:
make('check')
make('install')

18
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@@ -0,0 +1,18 @@
diff --git a/CMakeLists.txt b/CMakeLists.txt
index 607d221..345b7fc 100644
--- a/CMakeLists.txt
+++ b/CMakeLists.txt
@@ -113,11 +113,12 @@ set_target_properties(arpack PROPERTIES OUTPUT_NAME arpack${LIBSUFFIX})
if (MPI)
# add_library(parpack SHARED
- add_library(parpack
+ add_library(parpack
${parpacksrc_STAT_SRCS}
${parpackutil_STAT_SRCS})
target_link_libraries(parpack ${MPI_Fortran_LIBRARIES})
+ target_link_libraries(parpack arpack)
set_target_properties(parpack PROPERTIES OUTPUT_NAME parpack${LIBSUFFIX})
endif ()

40
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@@ -24,12 +24,12 @@
##############################################################################
from spack import *
import os
import shutil
class Arpack(Package):
"""A collection of Fortran77 subroutines designed to solve large scale
eigenvalue problems.
"""
eigenvalue problems."""
homepage = "http://www.caam.rice.edu/software/ARPACK/"
url = "http://www.caam.rice.edu/software/ARPACK/SRC/arpack96.tar.gz"
@@ -39,27 +39,35 @@ class Arpack(Package):
depends_on('lapack')
def patch(self):
# Filter the cray makefile to make a spack one.
shutil.move('ARMAKES/ARmake.CRAY', 'ARmake.inc')
makefile = FileFilter('ARmake.inc')
# Be sure to use Spack F77 wrapper
makefile.filter('^FC.*', 'FC = f77')
makefile.filter('^FFLAGS.*', 'FFLAGS = -O2 -g')
# Section 1: Paths and Libraries
# Set up some variables.
makefile.filter('^PLAT.*', 'PLAT = ')
makefile.filter('^home.*', 'home = %s' % os.getcwd())
makefile.filter('^BLASdir.*', 'BLASdir = %s' % self.spec['blas'].prefix)
makefile.filter('^LAPACKdir.*', 'LAPACKdir = %s' % self.spec['lapack'].prefix)
# Change the build directory
makefile.filter('^home.*', 'home = %s' % os.getcwd())
# build the library in our own prefix.
makefile.filter('^ARPACKLIB.*', 'ARPACKLIB = %s/libarpack.a' % os.getcwd())
# Use external BLAS/LAPACK
makefile.filter('^BLASdir.*',
'BLASdir = %s' % self.spec['blas'].prefix)
makefile.filter('^LAPACKdir.*',
'LAPACKdir = %s' % self.spec['lapack'].prefix)
# Do not include the platform in the library name
makefile.filter('^PLAT.*', 'PLAT = ')
makefile.filter('^ARPACKLIB.*', 'ARPACKLIB = $(home)/libarpack.a')
# Section 2: Compilers
# Be sure to use the Spack compiler wrapper
makefile.filter('^FC.*', 'FC = {0}'.format(os.environ['F77']))
makefile.filter('^FFLAGS.*', 'FFLAGS = -O2 -g -fPIC')
if not which('ranlib'):
makefile.filter('^RANLIB.*', 'RANLIB = touch')
def install(self, spec, prefix):
with working_dir('SRC'):
make('all')
mkdirp(prefix.lib)
mkdir(prefix.lib)
install('libarpack.a', prefix.lib)

1
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@@ -24,6 +24,7 @@
##############################################################################
from spack import *
class Asciidoc(Package):
""" A presentable text document format for writing articles, UNIX man
pages and other small to medium sized documents."""

10
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@@ -24,6 +24,7 @@
##############################################################################
from spack import *
class Atk(Package):
"""ATK provides the set of accessibility interfaces that are
implemented by other toolkits and applications. Using the ATK
@@ -32,9 +33,16 @@ class Atk(Package):
homepage = "https://developer.gnome.org/atk/"
url = "http://ftp.gnome.org/pub/gnome/sources/atk/2.14/atk-2.14.0.tar.xz"
version('2.20.0', '5187b0972f4d3905f285540b31395e20')
version('2.14.0', 'ecb7ca8469a5650581b1227d78051b8b')
depends_on("glib")
depends_on('glib')
depends_on('pkg-config', type='build')
def url_for_version(self, version):
"""Handle atk's version-based custom URLs."""
url = 'http://ftp.gnome.org/pub/gnome/sources/atk'
return 'url+/%s/atk-%s.tar.xz' % (version.up_to(2), version)
def install(self, spec, prefix):
configure("--prefix=%s" % prefix)

68
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@@ -23,20 +23,24 @@
# Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
##############################################################################
from spack import *
from spack.package_test import *
from spack.util.executable import Executable
import os.path
class Atlas(Package):
"""
Automatically Tuned Linear Algebra Software, generic shared ATLAS is an approach for the automatic generation and
optimization of numerical software. Currently ATLAS supplies optimized versions for the complete set of linear
algebra kernels known as the Basic Linear Algebra Subroutines (BLAS), and a subset of the linear algebra routines
in the LAPACK library.
"""Automatically Tuned Linear Algebra Software, generic shared ATLAS is an
approach for the automatic generation and optimization of numerical
software. Currently ATLAS supplies optimized versions for the complete set
of linear algebra kernels known as the Basic Linear Algebra Subroutines
(BLAS), and a subset of the linear algebra routines in the LAPACK library.
"""
homepage = "http://math-atlas.sourceforge.net/"
version('3.10.2', 'a4e21f343dec8f22e7415e339f09f6da',
url='http://downloads.sourceforge.net/project/math-atlas/Stable/3.10.2/atlas3.10.2.tar.bz2', preferred=True)
url='https://sourceforge.net/projects/math-atlas/files/Stable/3.10.2/atlas3.10.2.tar.bz2', preferred=True)
# not all packages (e.g. Trilinos@12.6.3) stopped using deprecated in 3.6.0
# Lapack routines. Stick with 3.5.0 until this is fixed.
resource(name='lapack',
url='http://www.netlib.org/lapack/lapack-3.5.0.tgz',
md5='b1d3e3e425b2e44a06760ff173104bdf',
@@ -44,7 +48,7 @@ class Atlas(Package):
when='@3:')
version('3.11.34', '0b6c5389c095c4c8785fd0f724ec6825',
url='http://sourceforge.net/projects/math-atlas/files/Developer%20%28unstable%29/3.11.34/atlas3.11.34.tar.bz2/download')
url='http://sourceforge.net/projects/math-atlas/files/Developer%20%28unstable%29/3.11.34/atlas3.11.34.tar.bz2')
variant('shared', default=True, description='Builds shared library')
@@ -66,9 +70,24 @@ def install(self, spec, prefix):
options = []
if '+shared' in spec:
options.append('--shared')
options.extend([
'--shared'
])
# TODO: for non GNU add '-Fa', 'alg', '-fPIC' ?
# Lapack resource
# configure for 64-bit build
options.extend([
'-b', '64'
])
# set compilers:
options.extend([
'-C', 'ic', spack_cc,
'-C', 'if', spack_f77
])
# Lapack resource to provide full lapack build. Note that
# ATLAS only provides a few LAPACK routines natively.
lapack_stage = self.stage[1]
lapack_tarfile = os.path.basename(lapack_stage.fetcher.url)
lapack_tarfile_path = join_path(lapack_stage.path, lapack_tarfile)
@@ -81,4 +100,35 @@ def install(self, spec, prefix):
make('check')
make('ptcheck')
make('time')
if '+shared' in spec:
with working_dir('lib'):
make('shared_all')
make("install")
self.install_test()
def setup_dependent_package(self, module, dspec):
# libsatlas.[so,dylib,dll ] contains all serial APIs (serial lapack,
# serial BLAS), and all ATLAS symbols needed to support them. Whereas
# libtatlas.[so,dylib,dll ] is parallel (multithreaded) version.
name = 'libsatlas.%s' % dso_suffix
libdir = find_library_path(name,
self.prefix.lib64,
self.prefix.lib)
if '+shared' in self.spec:
self.spec.blas_shared_lib = join_path(libdir, name)
self.spec.lapack_shared_lib = self.spec.blas_shared_lib
def install_test(self):
source_file = join_path(os.path.dirname(self.module.__file__),
'test_cblas_dgemm.c')
blessed_file = join_path(os.path.dirname(self.module.__file__),
'test_cblas_dgemm.output')
include_flags = ["-I%s" % join_path(self.spec.prefix, "include")]
link_flags = ["-L%s" % join_path(self.spec.prefix, "lib"),
"-lsatlas"]
output = compile_c_and_execute(source_file, include_flags, link_flags)
compare_output_file(output, blessed_file)

49
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@@ -0,0 +1,49 @@
#include <cblas.h>
#include <stdio.h>
double m[] = {
3, 1, 3,
1, 5, 9,
2, 6, 5
};
double x[] = {
-1, 3, -3
};
#ifdef __cplusplus
extern "C" {
#endif
void dgesv_(int *n, int *nrhs, double *a, int *lda,
int *ipivot, double *b, int *ldb, int *info);
#ifdef __cplusplus
}
#endif
int main(void) {
int i;
// blas:
double A[6] = {1.0, 2.0, 1.0, -3.0, 4.0, -1.0};
double B[6] = {1.0, 2.0, 1.0, -3.0, 4.0, -1.0};
double C[9] = {.5, .5, .5, .5, .5, .5, .5, .5, .5};
cblas_dgemm(CblasColMajor, CblasNoTrans, CblasTrans,
3, 3, 2, 1, A, 3, B, 3, 2, C, 3);
for (i = 0; i < 9; i++)
printf("%f\n", C[i]);
// lapack:
int ipiv[3];
int j;
int info;
int n = 1;
int nrhs = 1;
int lda = 3;
int ldb = 3;
dgesv_(&n,&nrhs, &m[0], &lda, ipiv, &x[0], &ldb, &info);
for (i=0; i<3; ++i)
printf("%5.1f\n", x[i]);
return 0;
}

12
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@@ -0,0 +1,12 @@
11.000000
-9.000000
5.000000
-9.000000
21.000000
-1.000000
5.000000
-1.000000
3.000000
-0.3
3.0
-3.0

3
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@@ -24,6 +24,7 @@
##############################################################################
from spack import *
class Atop(Package):
"""Atop is an ASCII full-screen performance monitor for Linux"""
homepage = "http://www.atoptool.nl/index.php"
@@ -37,4 +38,4 @@ def install(self, spec, prefix):
install("atop", join_path(prefix.bin, "atop"))
mkdirp(join_path(prefix.man, "man1"))
install(join_path("man", "atop.1"),
join_path(prefix.man, "man1", "atop.1"))
join_path(prefix.man, "man1", "atop.1"))

28
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@@ -24,18 +24,36 @@
##############################################################################
from spack import *
class Autoconf(Package):
"""Autoconf -- system configuration part of autotools"""
homepage = "https://www.gnu.org/software/autoconf/"
url = "http://ftp.gnu.org/gnu/autoconf/autoconf-2.69.tar.gz"
"""
Autoconf -- system configuration part of autotools
"""
homepage = 'https://www.gnu.org/software/autoconf/'
url = 'http://ftp.gnu.org/gnu/autoconf/autoconf-2.69.tar.gz'
version('2.69', '82d05e03b93e45f5a39b828dc9c6c29b')
version('2.62', '6c1f3b3734999035d77da5024aab4fbd')
depends_on("m4")
depends_on('m4', type='build')
def _make_executable(self, name):
return Executable(join_path(self.prefix.bin, name))
def setup_dependent_package(self, module, dependent_spec):
# Autoconf is very likely to be a build dependency,
# so we add the tools it provides to the dependent module
executables = ['autoconf',
'autoheader',
'autom4te',
'autoreconf',
'autoscan',
'autoupdate',
'ifnames']
for name in executables:
setattr(module, name, self._make_executable(name))
def install(self, spec, prefix):
configure("--prefix=%s" % prefix)
make()
make("install")

2
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@@ -24,6 +24,7 @@
##############################################################################
from spack import *
class Automaded(Package):
"""AutomaDeD (Automata-based Debugging for Dissimilar parallel
tasks) is a tool for automatic diagnosis of performance and
@@ -44,6 +45,7 @@ class Automaded(Package):
depends_on('mpi')
depends_on('boost')
depends_on('callpath')
depends_on('cmake', type='build')
def install(self, spec, prefix):
cmake("-DSTATE_TRACKER_WITH_CALLPATH=ON", *std_cmake_args)

20
var/spack/repos/builtin/packages/automake/package.py
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@@ -24,10 +24,13 @@
##############################################################################
from spack import *
class Automake(Package):
"""Automake -- make file builder part of autotools"""
homepage = "http://www.gnu.org/software/automake/"
url = "http://ftp.gnu.org/gnu/automake/automake-1.14.tar.gz"
"""
Automake -- make file builder part of autotools
"""
homepage = 'http://www.gnu.org/software/automake/'
url = 'http://ftp.gnu.org/gnu/automake/automake-1.14.tar.gz'
version('1.15', '716946a105ca228ab545fc37a70df3a3')
version('1.14.1', 'd052a3e884631b9c7892f2efce542d75')
@@ -35,8 +38,17 @@ class Automake(Package):
depends_on('autoconf')
def _make_executable(self, name):
return Executable(join_path(self.prefix.bin, name))
def setup_dependent_package(self, module, dependent_spec):
# Automake is very likely to be a build dependency,
# so we add the tools it provides to the dependent module
executables = ['aclocal', 'automake']
for name in executables:
setattr(module, name, self._make_executable(name))
def install(self, spec, prefix):
configure("--prefix=%s" % prefix)
make()
make("install")

1
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@@ -24,6 +24,7 @@
##############################################################################
from spack import *
class Bash(Package):
"""The GNU Project's Bourne Again SHell."""

10
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@@ -24,18 +24,22 @@
##############################################################################
from spack import *
class Bbcp(Package):
"""Securely and quickly copy data from source to target"""
homepage = "http://www.slac.stanford.edu/~abh/bbcp/"
version('git', git='http://www.slac.stanford.edu/~abh/bbcp/bbcp.git', branch="master")
version('git', git='http://www.slac.stanford.edu/~abh/bbcp/bbcp.git',
branch="master")
def install(self, spec, prefix):
cd("src")
make()
# BBCP wants to build the executable in a directory whose name depends on the system type
# BBCP wants to build the executable in a directory whose name depends
# on the system type
makesname = Executable("../MakeSname")
bbcp_executable_path = "../bin/%s/bbcp" % makesname(output=str).rstrip("\n")
bbcp_executable_path = "../bin/%s/bbcp" % makesname(
output=str).rstrip("\n")
destination_path = "%s/bin/" % prefix
mkdirp(destination_path)
install(bbcp_executable_path, destination_path)

43
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@@ -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 Bcftools(Package):
"""BCFtools is a set of utilities that manipulate variant calls in the
Variant Call Format (VCF) and its binary counterpart BCF. All
commands work transparently with both VCFs and BCFs, both
uncompressed and BGZF-compressed."""
homepage = "http://samtools.github.io/bcftools/"
url = "https://github.com/samtools/bcftools/releases/download/1.3.1/bcftools-1.3.1.tar.bz2"
version('1.3.1', '575001e9fca37cab0c7a7287ad4b1cdb')
depends_on('zlib')
def install(self, spec, prefix):
make("prefix=%s" % prefix, "all")
make("prefix=%s" % prefix, "install")

53
var/spack/repos/builtin/packages/bdw-gc/package.py Normal file
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@@ -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 BdwGc(Package):
"""The Boehm-Demers-Weiser conservative garbage collector is a garbage
collecting replacement for C malloc or C++ new."""
homepage = "http://www.hboehm.info/gc/"
url = "http://www.hboehm.info/gc/gc_source/gc-7.4.4.tar.gz"
version('7.4.4', '96d18b0448a841c88d56e4ab3d180297')
variant('libatomic-ops', default=True,
description='Use external libatomic-ops')
depends_on('libatomic-ops', when='+libatomic-ops')
def install(self, spec, prefix):
config_args = [
'--prefix={0}'.format(prefix),
'--with-libatomic-ops={0}'.format(
'yes' if '+libatomic-ops' in spec else 'no')
]
configure(*config_args)
make()
make('check')
make('install')

6
var/spack/repos/builtin/packages/bear/package.py
View File

@@ -24,14 +24,16 @@
##############################################################################
from spack import *
class Bear(Package):
"""Bear is a tool that generates a compilation database for clang tooling from non-cmake build systems."""
"""Bear is a tool that generates a compilation database for clang tooling
from non-cmake build systems."""
homepage = "https://github.com/rizsotto/Bear"
url = "https://github.com/rizsotto/Bear/archive/2.0.4.tar.gz"
version('2.0.4', 'fd8afb5e8e18f8737ba06f90bd77d011')
depends_on("cmake")
depends_on('cmake', type='build')
depends_on("python")
def install(self, spec, prefix):

50
var/spack/repos/builtin/packages/bertini/package.py Normal file
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@@ -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 Bertini(Package):
"""Bertini is a general-purpose solver, written in C, that was created
for research about polynomial continuation. It solves for the numerical
solution of systems of polynomial equations using homotopy continuation."""
homepage = "https://bertini.nd.edu/"
url = "https://bertini.nd.edu/BertiniSource_v1.5.tar.gz"
version('1.5', 'e3f6cc6e7f9a0cf1d73185e8671af707')
variant('mpi', default=True, description='Compile in parallel')
depends_on('flex', type='build')
depends_on('bison', type='build')
depends_on('gmp')
depends_on('mpfr')
depends_on('mpi', when='+mpi')
def install(self, spec, prefix):
configure('--prefix=%s' % prefix)
make()
make("install")

3
var/spack/repos/builtin/packages/bib2xhtml/package.py
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@@ -25,10 +25,11 @@
from spack import *
from glob import glob
class Bib2xhtml(Package):
"""bib2xhtml is a program that converts BibTeX files into HTML."""
homepage = "http://www.spinellis.gr/sw/textproc/bib2xhtml/"
url='http://www.spinellis.gr/sw/textproc/bib2xhtml/bib2xhtml-v3.0-15-gf506.tar.gz'
url = 'http://www.spinellis.gr/sw/textproc/bib2xhtml/bib2xhtml-v3.0-15-gf506.tar.gz'
version('3.0-15-gf506', 'a26ba02fe0053bbbf2277bdf0acf8645')

21
var/spack/repos/builtin/packages/binutils/package.py
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@@ -24,28 +24,33 @@
##############################################################################
from spack import *
class Binutils(Package):
"""GNU binutils, which contain the linker, assembler, objdump and others"""
homepage = "http://www.gnu.org/software/binutils/"
url = "https://ftp.gnu.org/gnu/binutils/binutils-2.25.tar.bz2"
url="https://ftp.gnu.org/gnu/binutils/binutils-2.25.tar.bz2"
# 2.26 is incompatible with py-pillow build for some reason.
version('2.26', '64146a0faa3b411ba774f47d41de239f')
version('2.25', 'd9f3303f802a5b6b0bb73a335ab89d66')
version('2.25', 'd9f3303f802a5b6b0bb73a335ab89d66', preferred=True)
version('2.24', 'e0f71a7b2ddab0f8612336ac81d9636b')
version('2.23.2', '4f8fa651e35ef262edc01d60fb45702e')
version('2.20.1', '2b9dc8f2b7dbd5ec5992c6e29de0b764')
depends_on('m4')
depends_on('flex')
depends_on('bison')
depends_on('m4', type='build')
depends_on('flex', type='build')
depends_on('bison', type='build')
# Add a patch that creates binutils libiberty_pic.a which is preferred by OpenSpeedShop and cbtf-krell
variant('krellpatch', default=False, description="build with openspeedshop based patch.")
# Add a patch that creates binutils libiberty_pic.a which is preferred by
# OpenSpeedShop and cbtf-krell
variant('krellpatch', default=False,
description="build with openspeedshop based patch.")
variant('gold', default=True, description="build the gold linker")
patch('binutilskrell-2.24.patch', when='@2.24+krellpatch')
patch('cr16.patch')
patch('update_symbol-2.26.patch', when='@2.26')
variant('libiberty', default=False, description='Also install libiberty.')

104
var/spack/repos/builtin/packages/binutils/update_symbol-2.26.patch Normal file
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@@ -0,0 +1,104 @@
From 544ddf9322b1b83982e5cb84a54d084ee7e718ea Mon Sep 17 00:00:00 2001
From: H.J. Lu <hjl.tools@gmail.com>
Date: Wed, 24 Feb 2016 15:13:35 -0800
Subject: [PATCH] Update symbol version for symbol from linker script
We need to update symbol version for symbols from linker script.
Backport from master
bfd/
PR ld/19698
* elflink.c (bfd_elf_record_link_assignment): Set versioned if
symbol version is unknown.
ld/
PR ld/19698
* testsuite/ld-elf/pr19698.d: New file.
* testsuite/ld-elf/pr19698.s: Likewise.
* testsuite/ld-elf/pr19698.t: Likewise.
---
bfd/ChangeLog | 9 +++++++++
bfd/elflink.c | 13 +++++++++++++
ld/ChangeLog | 10 ++++++++++
ld/testsuite/ld-elf/pr19698.d | 10 ++++++++++
ld/testsuite/ld-elf/pr19698.s | 5 +++++
ld/testsuite/ld-elf/pr19698.t | 11 +++++++++++
6 files changed, 58 insertions(+), 0 deletions(-)
create mode 100644 ld/testsuite/ld-elf/pr19698.d
create mode 100644 ld/testsuite/ld-elf/pr19698.s
create mode 100644 ld/testsuite/ld-elf/pr19698.t
diff --git a/bfd/elflink.c b/bfd/elflink.c
index ae8d148..8fcaadd 100644
--- a/bfd/elflink.c
+++ b/bfd/elflink.c
@@ -555,6 +555,19 @@ bfd_elf_record_link_assignment (bfd *output_bfd,
if (h == NULL)
return provide;
+ if (h->versioned == unknown)
+ {
+ /* Set versioned if symbol version is unknown. */
+ char *version = strrchr (name, ELF_VER_CHR);
+ if (version)
+ {
+ if (version > name && version[-1] != ELF_VER_CHR)
+ h->versioned = versioned_hidden;
+ else
+ h->versioned = versioned;
+ }
+ }
+
switch (h->root.type)
{
case bfd_link_hash_defined:
diff --git a/ld/testsuite/ld-elf/pr19698.d b/ld/testsuite/ld-elf/pr19698.d
new file mode 100644
index 0000000..a39f67a
--- /dev/null
+++ b/ld/testsuite/ld-elf/pr19698.d
@@ -0,0 +1,10 @@
+#ld: -shared $srcdir/$subdir/pr19698.t
+#readelf : --dyn-syms --wide
+#target: *-*-linux* *-*-gnu* *-*-solaris*
+
+Symbol table '\.dynsym' contains [0-9]+ entries:
+#...
+ +[0-9]+: +[0-9a-f]+ +[0-9a-f]+ +FUNC +GLOBAL +DEFAULT +[0-9]+ +foo@VERS.1
+#...
+ +[0-9]+: +[0-9a-f]+ +[0-9a-f]+ +FUNC +GLOBAL +DEFAULT +[0-9]+ +foo@@VERS.2
+#pass
diff --git a/ld/testsuite/ld-elf/pr19698.s b/ld/testsuite/ld-elf/pr19698.s
new file mode 100644
index 0000000..875dca4
--- /dev/null
+++ b/ld/testsuite/ld-elf/pr19698.s
@@ -0,0 +1,5 @@
+ .text
+ .globl foo
+ .type foo, %function
+foo:
+ .byte 0
diff --git a/ld/testsuite/ld-elf/pr19698.t b/ld/testsuite/ld-elf/pr19698.t
new file mode 100644
index 0000000..09d9125
--- /dev/null
+++ b/ld/testsuite/ld-elf/pr19698.t
@@ -0,0 +1,11 @@
+"foo@VERS.1" = foo;
+
+VERSION {
+VERS.2 {
+ global:
+ foo;
+};
+
+VERS.1 {
+};
+}
--
1.7.1

7
var/spack/repos/builtin/packages/bison/package.py
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@@ -24,9 +24,10 @@
##############################################################################
from spack import *
class Bison(Package):
"""Bison is a general-purpose parser generator that converts
an annotated context-free grammar into a deterministic LR or
"""Bison is a general-purpose parser generator that converts
an annotated context-free grammar into a deterministic LR or
generalized LR (GLR) parser employing LALR(1) parser tables."""
homepage = "http://www.gnu.org/software/bison/"
@@ -34,7 +35,7 @@ class Bison(Package):
version('3.0.4', 'a586e11cd4aff49c3ff6d3b6a4c9ccf8')
depends_on("m4")
depends_on("m4", type='build')
def install(self, spec, prefix):
configure("--prefix=%s" % prefix)

1
var/spack/repos/builtin/packages/blitz/package.py
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@@ -24,6 +24,7 @@
##############################################################################
from spack import *
class Blitz(Package):
"""N-dimensional arrays for C++"""
homepage = "http://github.com/blitzpp/blitz"

97
var/spack/repos/builtin/packages/boost/package.py
View File

@@ -25,9 +25,8 @@
from spack import *
import spack
import sys
import os
import sys
class Boost(Package):
"""Boost provides free peer-reviewed portable C++ source
@@ -75,23 +74,24 @@ class Boost(Package):
version('1.34.0', 'ed5b9291ffad776f8757a916e1726ad0')
default_install_libs = set(['atomic',
'chrono',
'date_time',
'filesystem',
'graph',
'iostreams',
'locale',
'log',
'math',
'program_options',
'random',
'regex',
'serialization',
'signals',
'system',
'test',
'thread',
'wave'])
'chrono',
'date_time',
'filesystem',
'graph',
'iostreams',
'locale',
'log',
'math',
'program_options',
'random',
'regex',
'serialization',
'signals',
'system',
'test',
'thread',
'timer',
'wave'])
# mpi/python are not installed by default because they pull in many
# dependencies and/or because there is a great deal of customization
@@ -102,13 +102,19 @@ class Boost(Package):
for lib in all_libs:
variant(lib, default=(lib not in default_noinstall_libs),
description="Compile with {0} library".format(lib))
description="Compile with {0} library".format(lib))
variant('debug', default=False, description='Switch to the debug version of Boost')
variant('shared', default=True, description="Additionally build shared libraries")
variant('multithreaded', default=True, description="Build multi-threaded versions of libraries")
variant('singlethreaded', default=True, description="Build single-threaded versions of libraries")
variant('icu_support', default=False, description="Include ICU support (for regex/locale libraries)")
variant('debug', default=False,
description='Switch to the debug version of Boost')
variant('shared', default=True,
description="Additionally build shared libraries")
variant('multithreaded', default=True,
description="Build multi-threaded versions of libraries")
variant('singlethreaded', default=True,
description="Build single-threaded versions of libraries")
variant('icu_support', default=False,
description="Include ICU support (for regex/locale libraries)")
variant('graph', default=False, description="Build the Boost Graph library")
depends_on('icu', when='+icu_support')
depends_on('python', when='+python')
@@ -120,15 +126,17 @@ class Boost(Package):
patch('boost_11856.patch', when='@1.60.0%gcc@4.4.7')
def url_for_version(self, version):
"""Handle Boost's weird URLs, which write the version two different ways."""
"""
Handle Boost's weird URLs,
which write the version two different ways.
"""
parts = [str(p) for p in Version(version)]
dots = ".".join(parts)
underscores = "_".join(parts)
return "http://downloads.sourceforge.net/project/boost/boost/%s/boost_%s.tar.bz2" % (
dots, underscores)
return "http://downloads.sourceforge.net/project/boost/boost/%s/boost_%s.tar.bz2" % (dots, underscores)
def determine_toolset(self, spec):
if spec.satisfies("arch=darwin-x86_64"):
if spec.satisfies("platform=darwin"):
return 'darwin'
toolsets = {'g++': 'gcc',
@@ -149,20 +157,20 @@ def determine_bootstrap_options(self, spec, withLibs, options):
if '+python' in spec:
options.append('--with-python=%s' %
join_path(spec['python'].prefix.bin, 'python'))
join_path(spec['python'].prefix.bin, 'python'))
with open('user-config.jam', 'w') as f:
compiler_wrapper = join_path(spack.build_env_path, 'c++')
f.write("using {0} : : {1} ;\n".format(boostToolsetId,
compiler_wrapper))
compiler_wrapper))
if '+mpi' in spec:
f.write('using mpi : %s ;\n' %
join_path(spec['mpi'].prefix.bin, 'mpicxx'))
join_path(spec['mpi'].prefix.bin, 'mpicxx'))
if '+python' in spec:
f.write('using python : %s : %s ;\n' %
(spec['python'].version,
join_path(spec['python'].prefix.bin, 'python')))
(spec['python'].version,
join_path(spec['python'].prefix.bin, 'python')))
def determine_b2_options(self, spec, options):
if '+debug' in spec:
@@ -178,8 +186,7 @@ def determine_b2_options(self, spec, options):
'-s', 'BZIP2_INCLUDE=%s' % spec['bzip2'].prefix.include,
'-s', 'BZIP2_LIBPATH=%s' % spec['bzip2'].prefix.lib,
'-s', 'ZLIB_INCLUDE=%s' % spec['zlib'].prefix.include,
'-s', 'ZLIB_LIBPATH=%s' % spec['zlib'].prefix.lib,
])
'-s', 'ZLIB_LIBPATH=%s' % spec['zlib'].prefix.lib])
linkTypes = ['static']
if '+shared' in spec:
@@ -191,7 +198,8 @@ def determine_b2_options(self, spec, options):
if '+singlethreaded' in spec:
threadingOpts.append('single')
if not threadingOpts:
raise RuntimeError("At least one of {singlethreaded, multithreaded} must be enabled")
raise RuntimeError("""At least one of {singlethreaded,
multithreaded} must be enabled""")
options.extend([
'toolset=%s' % self.determine_toolset(spec),
@@ -202,9 +210,9 @@ def determine_b2_options(self, spec, options):
def install(self, spec, prefix):
# On Darwin, Boost expects the Darwin libtool. However, one of the
# dependencies may have pulled in Spack's GNU libtool, and these two are
# not compatible. We thus create a symlink to Darwin's libtool and add
# it at the beginning of PATH.
# dependencies may have pulled in Spack's GNU libtool, and these two
# are not compatible. We thus create a symlink to Darwin's libtool
# and add it at the beginning of PATH.
if sys.platform == 'darwin':
newdir = os.path.abspath('darwin-libtool')
mkdirp(newdir)
@@ -217,7 +225,8 @@ def install(self, spec, prefix):
withLibs.append(lib)
if not withLibs:
# if no libraries are specified for compilation, then you dont have
# to configure/build anything, just copy over to the prefix directory.
# to configure/build anything, just copy over to the prefix
# directory.
src = join_path(self.stage.source_path, 'boost')
mkdirp(join_path(prefix, 'include'))
dst = join_path(prefix, 'include', 'boost')
@@ -235,6 +244,9 @@ def install(self, spec, prefix):
withLibs.remove('chrono')
if not spec.satisfies('@1.43.0:'):
withLibs.remove('random')
if '+graph' in spec and '+mpi' in spec:
withLibs.remove('graph')
withLibs.append('graph_parallel')
# to make Boost find the user-config.jam
env['BOOST_BUILD_PATH'] = './'
@@ -259,6 +271,7 @@ def install(self, spec, prefix):
for threadingOpt in threadingOpts:
b2('install', 'threading=%s' % threadingOpt, *b2_options)
# The shared libraries are not installed correctly on Darwin; correct this
# The shared libraries are not installed correctly
# on Darwin; correct this
if (sys.platform == 'darwin') and ('+shared' in spec):
fix_darwin_install_name(prefix.lib)

8
var/spack/repos/builtin/packages/bowtie2/package.py
View File

@@ -24,12 +24,15 @@
##############################################################################
from spack import *
from glob import glob
class Bowtie2(Package):
"""Description"""
homepage = "bowtie-bio.sourceforge.net/bowtie2/index.shtml"
version('2.2.5','51fa97a862d248d7ee660efc1147c75f', url = "http://downloads.sourceforge.net/project/bowtie-bio/bowtie2/2.2.5/bowtie2-2.2.5-source.zip")
version('2.2.5', '51fa97a862d248d7ee660efc1147c75f',
url="http://downloads.sourceforge.net/project/bowtie-bio/bowtie2/2.2.5/bowtie2-2.2.5-source.zip")
patch('bowtie2-2.5.patch',when='@2.2.5', level=0)
patch('bowtie2-2.5.patch', when='@2.2.5', level=0)
def install(self, spec, prefix):
make()
@@ -45,4 +48,3 @@ def install(self, spec, prefix):
# install('bowtie2-inspect',prefix.bin)
# install('bowtie2-inspect-l',prefix.bin)
# install('bowtie2-inspect-s',prefix.bin)

5
var/spack/repos/builtin/packages/boxlib/package.py
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@@ -24,17 +24,19 @@
##############################################################################
from spack import *
class Boxlib(Package):
"""BoxLib, a software framework for massively parallel
block-structured adaptive mesh refinement (AMR) codes."""
homepage = "https://ccse.lbl.gov/BoxLib/"
url = "https://ccse.lbl.gov/pub/Downloads/BoxLib.git";
url = "https://ccse.lbl.gov/pub/Downloads/BoxLib.git"
# TODO: figure out how best to version this. No tags in the repo!
version('master', git='https://ccse.lbl.gov/pub/Downloads/BoxLib.git')
depends_on('mpi')
depends_on('cmake', type='build')
def install(self, spec, prefix):
args = std_cmake_args
@@ -46,4 +48,3 @@ def install(self, spec, prefix):
cmake('.', *args)
make()
make("install")

41
var/spack/repos/builtin/packages/bpp-core/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 BppCore(Package):
"""Bio++ core library."""
homepage = "http://biopp.univ-montp2.fr/wiki/index.php/Installation"
url = "http://biopp.univ-montp2.fr/repos/sources/bpp-core-2.2.0.tar.gz"
version('2.2.0', '5789ed2ae8687d13664140cd77203477')
depends_on('cmake', type='build')
def install(self, spec, prefix):
cmake('-DBUILD_TESTING=FALSE', '.', *std_cmake_args)
make()
make('install')

43
var/spack/repos/builtin/packages/bpp-phyl/package.py Normal file
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@@ -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 BppPhyl(Package):
"""Bio++ phylogeny library."""
homepage = "http://biopp.univ-montp2.fr/wiki/index.php/Installation"
url = "http://biopp.univ-montp2.fr/repos/sources/bpp-phyl-2.2.0.tar.gz"
version('2.2.0', '5c40667ec0bf37e0ecaba321be932770')
depends_on('cmake', type='build')
depends_on('bpp-core')
depends_on('bpp-seq')
def install(self, spec, prefix):
cmake('-DBUILD_TESTING=FALSE', '.', *std_cmake_args)
make()
make('install')

42
var/spack/repos/builtin/packages/bpp-seq/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 BppSeq(Package):
"""Bio++ seq library."""
homepage = "http://biopp.univ-montp2.fr/wiki/index.php/Installation"
url = "http://biopp.univ-montp2.fr/repos/sources/bpp-seq-2.2.0.tar.gz"
version('2.2.0', '44adef0ff4d5ca4e69ccf258c9270633')
depends_on('cmake', type='build')
depends_on('bpp-core')
def install(self, spec, prefix):
cmake('-DBUILD_TESTING=FALSE', '.', *std_cmake_args)
make()
make('install')

47
var/spack/repos/builtin/packages/bpp-suite/package.py Normal file
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@@ -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 BppSuite(Package):
"""BppSuite is a suite of ready-to-use programs for phylogenetic and
sequence analysis."""
homepage = "http://biopp.univ-montp2.fr/wiki/index.php/BppSuite"
url = "http://biopp.univ-montp2.fr/repos/sources/bppsuite/bppsuite-2.2.0.tar.gz"
version('2.2.0', 'd8b29ad7ccf5bd3a7beb701350c9e2a4')
# FIXME: Add dependencies if required.
depends_on('cmake', type='build')
depends_on('texinfo', type='build')
depends_on('bpp-core')
depends_on('bpp-seq')
depends_on('bpp-phyl')
def install(self, spec, prefix):
cmake('.', *std_cmake_args)
make()
make('install')

52
var/spack/repos/builtin/packages/bwa/package.py Normal file
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@@ -0,0 +1,52 @@
##############################################################################
# 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 Bwa(Package):
"""Burrow-Wheeler Aligner for pairwise alignment between DNA sequences."""
homepage = "http://github.com/lh3/bwa"
url = "https://github.com/lh3/bwa/releases/download/v0.7.15/bwa-0.7.15.tar.bz2"
version('0.7.15', 'fcf470a46a1dbe2f96a1c5b87c530554')
depends_on('zlib')
def install(self, spec, prefix):
filter_file(r'^INCLUDES=',
"INCLUDES=-I%s" % spec['zlib'].prefix.include, 'Makefile')
filter_file(r'^LIBS=', "LIBS=-L%s " % spec['zlib'].prefix.lib,
'Makefile')
make()
mkdirp(prefix.bin)
install('bwa', join_path(prefix.bin, 'bwa'))
set_executable(join_path(prefix.bin, 'bwa'))
mkdirp(prefix.doc)
install('README.md', prefix.doc)
install('NEWS.md', prefix.doc)
mkdirp(prefix.man1)
install('bwa.1', prefix.man1)

61
var/spack/repos/builtin/packages/bzip2/package.py
View File

@@ -24,54 +24,69 @@
##############################################################################
from spack import *
class Bzip2(Package):
"""bzip2 is a freely available, patent free high-quality data
compressor. It typically compresses files to within 10% to 15%
of the best available techniques (the PPM family of statistical
compressors), whilst being around twice as fast at compression
and six times faster at decompression.
compressor. It typically compresses files to within 10% to 15%
of the best available techniques (the PPM family of statistical
compressors), whilst being around twice as fast at compression
and six times faster at decompression."""
"""
homepage = "http://www.bzip.org"
url = "http://www.bzip.org/1.0.6/bzip2-1.0.6.tar.gz"
version('1.0.6', '00b516f4704d4a7cb50a1d97e6e8e15b')
def patch(self):
mf = FileFilter('Makefile-libbz2_so')
mf.filter(r'^CC=gcc', 'CC=cc')
# bzip2 comes with two separate Makefiles for static and dynamic builds
# Tell both to use Spack's compiler wrapper instead of GCC
filter_file(r'^CC=gcc', 'CC=cc', 'Makefile')
filter_file(r'^CC=gcc', 'CC=cc', 'Makefile-libbz2_so')
# Below stuff patches the link line to use RPATHs on Mac OS X.
# Patch the link line to use RPATHs on macOS
if 'darwin' in self.spec.architecture:
v = self.spec.version
v1, v2, v3 = (v.up_to(i) for i in (1,2,3))
v1, v2, v3 = (v.up_to(i) for i in (1, 2, 3))
mf.filter('$(CC) -shared -Wl,-soname -Wl,libbz2.so.{0} -o libbz2.so.{1} $(OBJS)'.format(v2, v3),
'$(CC) -dynamiclib -Wl,-install_name -Wl,@rpath/libbz2.{0}.dylib -current_version {1} -compatibility_version {2} -o libbz2.{3}.dylib $(OBJS)'.format(v1, v2, v3, v3), string=True)
kwargs = {'ignore_absent': False, 'backup': False, 'string': True}
mf.filter('$(CC) $(CFLAGS) -o bzip2-shared bzip2.c libbz2.so.{0}'.format(v3),
'$(CC) $(CFLAGS) -o bzip2-shared bzip2.c libbz2.{0}.dylib'.format(v3), string=True)
mf.filter('rm -f libbz2.so.{0}'.format(v2),
'rm -f libbz2.{0}.dylib'.format(v2), string=True)
mf.filter('ln -s libbz2.so.{0} libbz2.so.{1}'.format(v3, v2),
'ln -s libbz2.{0}.dylib libbz2.{1}.dylib'.format(v3, v2), string=True)
mf = FileFilter('Makefile-libbz2_so')
mf.filter('$(CC) -shared -Wl,-soname -Wl,libbz2.so.{0} -o libbz2.so.{1} $(OBJS)' # noqa
.format(v2, v3),
'$(CC) -dynamiclib -Wl,-install_name -Wl,@rpath/libbz2.{0}.dylib -current_version {1} -compatibility_version {2} -o libbz2.{3}.dylib $(OBJS)' # noqa
.format(v1, v2, v3, v3),
**kwargs)
mf.filter(
'$(CC) $(CFLAGS) -o bzip2-shared bzip2.c libbz2.so.{0}'.format(v3), # noqa
'$(CC) $(CFLAGS) -o bzip2-shared bzip2.c libbz2.{0}.dylib'
.format(v3), **kwargs)
mf.filter(
'rm -f libbz2.so.{0}'.format(v2),
'rm -f libbz2.{0}.dylib'.format(v2), **kwargs)
mf.filter(
'ln -s libbz2.so.{0} libbz2.so.{1}'.format(v3, v2),
'ln -s libbz2.{0}.dylib libbz2.{1}.dylib'.format(v3, v2),
**kwargs)
def install(self, spec, prefix):
# Build the dynamic library first
make('-f', 'Makefile-libbz2_so')
make('clean')
make("install", "PREFIX=%s" % prefix)
# Build the static library and everything else
make()
make('install', 'PREFIX={0}'.format(prefix))
install('bzip2-shared', join_path(prefix.bin, 'bzip2'))
v1, v2, v3 = (self.spec.version.up_to(i) for i in (1,2,3))
v1, v2, v3 = (self.spec.version.up_to(i) for i in (1, 2, 3))
if 'darwin' in self.spec.architecture:
lib = 'libbz2.dylib'
lib1, lib2, lib3 = ('libbz2.{0}.dylib'.format(v) for v in (v1, v2, v3))
lib1, lib2, lib3 = ('libbz2.{0}.dylib'.format(v)
for v in (v1, v2, v3))
else:
lib = 'libbz2.so'
lib1, lib2, lib3 = ('libbz2.so.{0}'.format(v) for v in (v1, v2, v3))
lib1, lib2, lib3 = ('libbz2.so.{0}'.format(v)
for v in (v1, v2, v3))
install(lib3, join_path(prefix.lib, lib3))
with working_dir(prefix.lib):

52
var/spack/repos/builtin/packages/c-blosc/package.py Normal file
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@@ -0,0 +1,52 @@
##############################################################################
# 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 sys
from spack import *
class CBlosc(Package):
"""Blosc, an extremely fast, multi-threaded, meta-compressor library"""
homepage = "http://www.blosc.org"
url = "https://github.com/Blosc/c-blosc/archive/v1.9.2.tar.gz"
version('1.9.2', 'dd2d83069d74b36b8093f1c6b49defc5')
version('1.9.1', '7d708d3daadfacf984a87b71b1734ce2')
version('1.9.0', 'e4c1dc8e2c468e5cfa2bf05eeee5357a')
version('1.8.1', 'd73d5be01359cf271e9386c90dcf5b05')
version('1.8.0', '5b92ecb287695ba20cc33d30bf221c4f')
depends_on("cmake", type='build')
depends_on("snappy")
depends_on("zlib")
def install(self, spec, prefix):
cmake('.', *std_cmake_args)
make()
make("install")
if sys.platform == 'darwin':
fix_darwin_install_name(prefix.lib)

9
var/spack/repos/builtin/packages/cairo/package.py
View File

@@ -24,8 +24,10 @@
##############################################################################
from spack import *
class Cairo(Package):
"""Cairo is a 2D graphics library with support for multiple output devices."""
"""Cairo is a 2D graphics library with support for multiple output
devices."""
homepage = "http://cairographics.org"
url = "http://cairographics.org/releases/cairo-1.14.0.tar.xz"
@@ -34,11 +36,12 @@ class Cairo(Package):
depends_on("libpng")
depends_on("glib")
depends_on("pixman")
depends_on("fontconfig@2.10.91:") # Require newer version of fontconfig.
depends_on("freetype")
depends_on("fontconfig@2.10.91:") # Require newer version of fontconfig.
def install(self, spec, prefix):
configure("--prefix=%s" % prefix,
"--disable-trace", # can cause problems with libiberty
"--disable-trace", # can cause problems with libiberty
"--enable-tee")
make()
make("install")

12
var/spack/repos/builtin/packages/caliper/package.py
View File

@@ -24,6 +24,7 @@
##############################################################################
from spack import *
class Caliper(Package):
"""
Caliper is a generic context annotation system. It gives programmers the
@@ -34,16 +35,17 @@ class Caliper(Package):
homepage = "https://github.com/LLNL/Caliper"
url = ""
version('master', git='ssh://git@github.com:LLNL/Caliper.git')
version('master', git='https://github.com/LLNL/Caliper.git')
variant('mpi', default=False, description='Enable MPI function wrappers.')
depends_on('libunwind')
depends_on('papi')
depends_on('mpi', when='+mpi')
depends_on('cmake', type='build')
def install(self, spec, prefix):
with working_dir('build', create=True):
cmake('..', *std_cmake_args)
make()
make("install")
with working_dir('build', create=True):
cmake('..', *std_cmake_args)
make()
make("install")

2
var/spack/repos/builtin/packages/callpath/package.py
View File

@@ -24,6 +24,7 @@
##############################################################################
from spack import *
class Callpath(Package):
"""Library for representing callpaths consistently in
distributed-memory performance tools."""
@@ -39,6 +40,7 @@ class Callpath(Package):
depends_on("dyninst")
depends_on("adept-utils")
depends_on("mpi")
depends_on('cmake', type='build')
def install(self, spec, prefix):
# TODO: offer options for the walker used.

202
var/spack/repos/builtin/packages/cantera/package.py Normal file
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@@ -0,0 +1,202 @@
##############################################################################
# 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', type='build')
# 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', type=nolink)
depends_on('py-scipy', when='+python', type=nolink)
depends_on('py-cython', when='+python', type=nolink)
depends_on('py-3to2', when='+python', type=nolink)
# 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)

53
var/spack/repos/builtin/packages/cask/package.py Normal file
View File

@@ -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
##############################################################################
#
# Based on Homebrew's formula:
# https://github.com/Homebrew/homebrew-core/blob/master/Formula/cask.rb
#
from spack import *
from glob import glob
class Cask(Package):
"""Cask is a project management tool for Emacs Lisp to automate the package
development cycle; development, dependencies, testing, building,
packaging and more."""
homepage = "http://cask.readthedocs.io/en/latest/"
url = "https://github.com/cask/cask/archive/v0.7.4.tar.gz"
version('0.7.4', 'c973a7db43bc980dd83759a5864a1260')
depends_on('emacs', type=nolink)
def install(self, spec, prefix):
mkdirp(prefix.bin)
install('bin/cask', prefix.bin)
install_tree('templates', join_path(prefix, 'templates'))
for el_file in glob("*.el"):
install(el_file, prefix)
for misc_file in ['COPYING', 'cask.png', 'README.md']:
install(misc_file, prefix)
# disable cask's automatic upgrading feature
touch(join_path(prefix, ".no-upgrade"))

11
var/spack/repos/builtin/packages/cblas/package.py
View File

@@ -23,7 +23,7 @@
# Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
##############################################################################
from spack import *
import os
class Cblas(Package):
"""The BLAS (Basic Linear Algebra Subprograms) are routines that
@@ -42,11 +42,11 @@ class Cblas(Package):
def patch(self):
mf = FileFilter('Makefile.in')
mf.filter('^BLLIB =.*', 'BLLIB = %s/libblas.a' % self.spec['blas'].prefix.lib)
mf.filter('^BLLIB =.*', 'BLLIB = %s/libblas.a' %
self.spec['blas'].prefix.lib)
mf.filter('^CC =.*', 'CC = cc')
mf.filter('^FC =.*', 'FC = f90')
def install(self, spec, prefix):
make('all')
mkdirp(prefix.lib)
@@ -54,6 +54,5 @@ def install(self, spec, prefix):
# Rename the generated lib file to libcblas.a
install('./lib/cblas_LINUX.a', '%s/libcblas.a' % prefix.lib)
install('./include/cblas.h','%s' % prefix.include)
install('./include/cblas_f77.h','%s' % prefix.include)
install('./include/cblas.h', '%s' % prefix.include)
install('./include/cblas_f77.h', '%s' % prefix.include)

106
var/spack/repos/builtin/packages/cbtf-argonavis/package.py
View File

@@ -22,7 +22,7 @@
# License along with this program; if not, write to the Free Software
# Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
##############################################################################
################################################################################
##########################################################################
# Copyright (c) 2015-2016 Krell Institute. All Rights Reserved.
#
# This program is free software; you can redistribute it and/or modify it under
@@ -38,39 +38,45 @@
# You should have received a copy of the GNU 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 CbtfArgonavis(Package):
"""CBTF Argo Navis project contains the CUDA collector and supporting
libraries that was done as a result of a DOE SBIR grant."""
"""CBTF Argo Navis project contains the CUDA collector and supporting
libraries that was done as a result of a DOE SBIR grant.
"""
homepage = "http://sourceforge.net/p/cbtf/wiki/Home/"
# Mirror access template example
#url = "file:/home/jeg/OpenSpeedShop_ROOT/SOURCES/cbtf-argonavis-1.6.tar.gz"
#version('1.6', '0fafa0008478405c2c2319450f174ed4')
# url = "file:/home/jeg/OpenSpeedShop_ROOT/SOURCES/cbtf-argonavis-1.6.tar.gz"
# version('1.6', '0fafa0008478405c2c2319450f174ed4')
version('1.6', branch='master', git='https://github.com/OpenSpeedShop/cbtf-argonavis.git')
version('1.6', branch='master',
git='https://github.com/OpenSpeedShop/cbtf-argonavis.git')
depends_on("cmake@3.0.2")
depends_on("cmake@3.0.2", type='build')
depends_on("boost@1.50.0:")
depends_on("papi")
depends_on("mrnet@5.0.1:+lwthreads+krellpatch")
depends_on("cbtf")
depends_on("cbtf-krell")
depends_on("cuda@6.0.37")
#depends_on("cuda")
# depends_on("cuda")
parallel = False
def adjustBuildTypeParams_cmakeOptions(self, spec, cmakeOptions):
# Sets build type parameters into cmakeOptions the options that will enable the cbtf-krell built type settings
# Sets build type parameters into cmakeOptions the options that will
# enable the cbtf-krell built type settings
compile_flags="-O2 -g"
compile_flags = "-O2 -g"
BuildTypeOptions = []
# Set CMAKE_BUILD_TYPE to what cbtf-krell wants it to be, not the stdcmakeargs
# Set CMAKE_BUILD_TYPE to what cbtf-krell wants it to be, not the
# stdcmakeargs
for word in cmakeOptions[:]:
if word.startswith('-DCMAKE_BUILD_TYPE'):
cmakeOptions.remove(word)
@@ -81,50 +87,54 @@ def adjustBuildTypeParams_cmakeOptions(self, spec, cmakeOptions):
if word.startswith('-DCMAKE_VERBOSE_MAKEFILE'):
cmakeOptions.remove(word)
BuildTypeOptions.extend([
'-DCMAKE_VERBOSE_MAKEFILE=ON',
'-DCMAKE_BUILD_TYPE=None',
'-DCMAKE_CXX_FLAGS=%s' % compile_flags,
'-DCMAKE_C_FLAGS=%s' % compile_flags
'-DCMAKE_VERBOSE_MAKEFILE=ON',
'-DCMAKE_BUILD_TYPE=None',
'-DCMAKE_CXX_FLAGS=%s' % compile_flags,
'-DCMAKE_C_FLAGS=%s' % compile_flags
])
cmakeOptions.extend(BuildTypeOptions)
def install(self, spec, prefix):
# Look for package installation information in the cbtf and cbtf-krell prefixes
cmake_prefix_path = join_path(spec['cbtf'].prefix) + ':' + join_path(spec['cbtf-krell'].prefix)
# Look for package installation information in the cbtf and cbtf-krell
# prefixes
cmake_prefix_path = join_path(
spec['cbtf'].prefix) + ':' + join_path(spec['cbtf-krell'].prefix)
with working_dir('CUDA'):
with working_dir('build', create=True):
with working_dir('CUDA'):
with working_dir('build', create=True):
cmakeOptions = []
cmakeOptions.extend(['-DCMAKE_INSTALL_PREFIX=%s' % prefix,
'-DCMAKE_PREFIX_PATH=%s' % cmake_prefix_path,
'-DCUDA_DIR=%s' % spec['cuda'].prefix,
'-DCUDA_INSTALL_PATH=%s' % spec['cuda'].prefix,
'-DCUDA_TOOLKIT_ROOT_DIR=%s' % spec['cuda'].prefix,
'-DCUPTI_DIR=%s' % join_path(spec['cuda'].prefix + '/extras/CUPTI'),
'-DCUPTI_ROOT=%s' % join_path(spec['cuda'].prefix + '/extras/CUPTI'),
'-DPAPI_ROOT=%s' % spec['papi'].prefix,
'-DCBTF_DIR=%s' % spec['cbtf'].prefix,
'-DCBTF_KRELL_DIR=%s' % spec['cbtf-krell'].prefix,
'-DBOOST_ROOT=%s' % spec['boost'].prefix,
'-DBoost_DIR=%s' % spec['boost'].prefix,
'-DBOOST_LIBRARYDIR=%s' % spec['boost'].prefix.lib,
'-DMRNET_DIR=%s' % spec['mrnet'].prefix,
'-DBoost_NO_SYSTEM_PATHS=ON'
])
cmakeOptions = []
cmakeOptions.extend(
['-DCMAKE_INSTALL_PREFIX=%s' % prefix,
'-DCMAKE_PREFIX_PATH=%s' % cmake_prefix_path,
'-DCUDA_DIR=%s' % spec['cuda'].prefix,
'-DCUDA_INSTALL_PATH=%s' % spec['cuda'].prefix,
'-DCUDA_TOOLKIT_ROOT_DIR=%s' % spec['cuda'].prefix,
'-DCUPTI_DIR=%s' % join_path(
spec['cuda'].prefix + '/extras/CUPTI'),
'-DCUPTI_ROOT=%s' % join_path(
spec['cuda'].prefix + '/extras/CUPTI'),
'-DPAPI_ROOT=%s' % spec['papi'].prefix,
'-DCBTF_DIR=%s' % spec['cbtf'].prefix,
'-DCBTF_KRELL_DIR=%s' % spec['cbtf-krell'].prefix,
'-DBOOST_ROOT=%s' % spec['boost'].prefix,
'-DBoost_DIR=%s' % spec['boost'].prefix,
'-DBOOST_LIBRARYDIR=%s' % spec['boost'].prefix.lib,
'-DMRNET_DIR=%s' % spec['mrnet'].prefix,
'-DBoost_NO_SYSTEM_PATHS=ON'])
# Add in the standard cmake arguments
cmakeOptions.extend(std_cmake_args)
# Add in the standard cmake arguments
cmakeOptions.extend(std_cmake_args)
# Adjust the standard cmake arguments to what we want the build type, etc to be
self.adjustBuildTypeParams_cmakeOptions(spec, cmakeOptions)
# Invoke cmake
cmake('..', *cmakeOptions)
# Adjust the standard cmake arguments to what we want the build
# type, etc to be
self.adjustBuildTypeParams_cmakeOptions(spec, cmakeOptions)
make("clean")
make()
make("install")
# Invoke cmake
cmake('..', *cmakeOptions)
make("clean")
make()
make("install")

229
var/spack/repos/builtin/packages/cbtf-krell/package.py
View File

@@ -22,7 +22,7 @@
# License along with this program; if not, write to the Free Software
# Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
##############################################################################
################################################################################
##########################################################################
# Copyright (c) 2015-2016 Krell Institute. All Rights Reserved.
#
# This program is free software; you can redistribute it and/or modify it under
@@ -38,33 +38,43 @@
# You should have received a copy of the GNU 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 CbtfKrell(Package):
"""CBTF Krell project contains the Krell Institute contributions to the CBTF project.
These contributions include many performance data collectors and support
libraries as well as some example tools that drive the data collection at
HPC levels of scale."""
"""CBTF Krell project contains the Krell Institute contributions to the
CBTF project. These contributions include many performance data
collectors and support libraries as well as some example tools
that drive the data collection at HPC levels of scale.
"""
homepage = "http://sourceforge.net/p/cbtf/wiki/Home/"
# optional mirror access template
#url = "file:/home/jeg/cbtf-krell-1.6.tar.gz"
#version('1.6', 'edeb61cd488f16e7b124f77db9ce762d')
# url = "file:/home/jeg/cbtf-krell-1.6.tar.gz"
# version('1.6', 'edeb61cd488f16e7b124f77db9ce762d')
version('1.6', branch='master', git='https://github.com/OpenSpeedShop/cbtf-krell.git')
version('1.6', branch='master',
git='https://github.com/OpenSpeedShop/cbtf-krell.git')
# MPI variants
variant('openmpi', default=False, description="Build mpi experiment collector for openmpi MPI when this variant is enabled.")
variant('mpt', default=False, description="Build mpi experiment collector for SGI MPT MPI when this variant is enabled.")
variant('mvapich2', default=False, description="Build mpi experiment collector for mvapich2 MPI when this variant is enabled.")
variant('mvapich', default=False, description="Build mpi experiment collector for mvapich MPI when this variant is enabled.")
variant('mpich2', default=False, description="Build mpi experiment collector for mpich2 MPI when this variant is enabled.")
variant('mpich', default=False, description="Build mpi experiment collector for mpich MPI when this variant is enabled.")
variant('openmpi', default=False,
description="Build mpi experiment collector for openmpi MPI..")
variant('mpt', default=False,
description="Build mpi experiment collector for SGI MPT MPI.")
variant('mvapich2', default=False,
description="Build mpi experiment collector for mvapich2 MPI.")
variant('mvapich', default=False,
description="Build mpi experiment collector for mvapich MPI.")
variant('mpich2', default=False,
description="Build mpi experiment collector for mpich2 MPI.")
variant('mpich', default=False,
description="Build mpi experiment collector for mpich MPI.")
# Dependencies for cbtf-krell
depends_on("cmake@3.0.2")
depends_on("cmake@3.0.2", type='build')
# For binutils service
depends_on("binutils@2.24+krellpatch")
@@ -83,7 +93,8 @@ class CbtfKrell(Package):
depends_on("papi")
# MPI Installations
# These have not worked either for build or execution, commenting out for now
# These have not worked either for build or execution, commenting out for
# now
depends_on("openmpi", when='+openmpi')
depends_on("mpich", when='+mpich')
depends_on("mpich2", when='+mpich2')
@@ -94,11 +105,13 @@ class CbtfKrell(Package):
parallel = False
def adjustBuildTypeParams_cmakeOptions(self, spec, cmakeOptions):
# Sets build type parameters into cmakeOptions the options that will enable the cbtf-krell built type settings
compile_flags="-O2 -g"
# Sets build type parameters into cmakeOptions the options that will
# enable the cbtf-krell built type settings
compile_flags = "-O2 -g"
BuildTypeOptions = []
# Set CMAKE_BUILD_TYPE to what cbtf-krell wants it to be, not the stdcmakeargs
# Set CMAKE_BUILD_TYPE to what cbtf-krell wants it to be, not the
# stdcmakeargs
for word in cmakeOptions[:]:
if word.startswith('-DCMAKE_BUILD_TYPE'):
cmakeOptions.remove(word)
@@ -109,75 +122,76 @@ def adjustBuildTypeParams_cmakeOptions(self, spec, cmakeOptions):
if word.startswith('-DCMAKE_VERBOSE_MAKEFILE'):
cmakeOptions.remove(word)
BuildTypeOptions.extend([
'-DCMAKE_VERBOSE_MAKEFILE=ON',
'-DCMAKE_BUILD_TYPE=None',
'-DCMAKE_CXX_FLAGS=%s' % compile_flags,
'-DCMAKE_C_FLAGS=%s' % compile_flags
'-DCMAKE_VERBOSE_MAKEFILE=ON',
'-DCMAKE_BUILD_TYPE=None',
'-DCMAKE_CXX_FLAGS=%s' % compile_flags,
'-DCMAKE_C_FLAGS=%s' % compile_flags
])
cmakeOptions.extend(BuildTypeOptions)
def set_mpi_cmakeOptions(self, spec, cmakeOptions):
# Appends to cmakeOptions the options that will enable the appropriate MPI implementations
# Appends to cmakeOptions the options that will enable the appropriate
# MPI implementations
MPIOptions = []
# openmpi
if '+openmpi' in spec:
MPIOptions.extend([
'-DOPENMPI_DIR=%s' % spec['openmpi'].prefix
'-DOPENMPI_DIR=%s' % spec['openmpi'].prefix
])
# mpich
if '+mpich' in spec:
MPIOptions.extend([
'-DMPICH_DIR=%s' % spec['mpich'].prefix
'-DMPICH_DIR=%s' % spec['mpich'].prefix
])
# mpich2
if '+mpich2' in spec:
MPIOptions.extend([
'-DMPICH2_DIR=%s' % spec['mpich2'].prefix
'-DMPICH2_DIR=%s' % spec['mpich2'].prefix
])
# mvapich
if '+mvapich' in spec:
MPIOptions.extend([
'-DMVAPICH_DIR=%s' % spec['mvapich'].prefix
'-DMVAPICH_DIR=%s' % spec['mvapich'].prefix
])
# mvapich2
if '+mvapich2' in spec:
MPIOptions.extend([
'-DMVAPICH2_DIR=%s' % spec['mvapich2'].prefix
'-DMVAPICH2_DIR=%s' % spec['mvapich2'].prefix
])
# mpt
if '+mpt' in spec:
MPIOptions.extend([
'-DMPT_DIR=%s' % spec['mpt'].prefix
'-DMPT_DIR=%s' % spec['mpt'].prefix
])
cmakeOptions.extend(MPIOptions)
def install(self, spec, prefix):
# Add in paths for finding package config files that tell us where to find these packages
#cmake_prefix_path = join_path(spec['cbtf'].prefix) + ':' + join_path(spec['dyninst'].prefix)
#'-DCMAKE_PREFIX_PATH=%s' % cmake_prefix_path
# Add in paths for finding package config files that tell us
# where to find these packages
# cmake_prefix_path = \
# join_path(spec['cbtf'].prefix) + ':' + \
# join_path(spec['dyninst'].prefix)
# '-DCMAKE_PREFIX_PATH=%s' % cmake_prefix_path
# Build cbtf-krell with cmake
# Build cbtf-krell with cmake
with working_dir('build_cbtf_krell', create=True):
cmakeOptions = []
cmakeOptions.extend(['-DCMAKE_INSTALL_PREFIX=%s' % prefix,
'-DCBTF_DIR=%s' % spec['cbtf'].prefix,
'-DBINUTILS_DIR=%s' % spec['binutils'].prefix,
'-DLIBMONITOR_DIR=%s' % spec['libmonitor'].prefix,
'-DLIBUNWIND_DIR=%s' % spec['libunwind'].prefix,
'-DPAPI_DIR=%s' % spec['papi'].prefix,
'-DBOOST_DIR=%s' % spec['boost'].prefix,
'-DMRNET_DIR=%s' % spec['mrnet'].prefix,
'-DDYNINST_DIR=%s' % spec['dyninst'].prefix,
'-DXERCESC_DIR=%s' % spec['xerces-c'].prefix
])
cmakeOptions.extend(
['-DCMAKE_INSTALL_PREFIX=%s' % prefix,
'-DCBTF_DIR=%s' % spec['cbtf'].prefix,
'-DBINUTILS_DIR=%s' % spec['binutils'].prefix,
'-DLIBMONITOR_DIR=%s' % spec['libmonitor'].prefix,
'-DLIBUNWIND_DIR=%s' % spec['libunwind'].prefix,
'-DPAPI_DIR=%s' % spec['papi'].prefix,
'-DBOOST_DIR=%s' % spec['boost'].prefix,
'-DMRNET_DIR=%s' % spec['mrnet'].prefix,
'-DDYNINST_DIR=%s' % spec['dyninst'].prefix,
'-DXERCESC_DIR=%s' % spec['xerces-c'].prefix])
# Add any MPI implementations coming from variant settings
self.set_mpi_cmakeOptions(spec, cmakeOptions)
@@ -185,9 +199,10 @@ def install(self, spec, prefix):
# Add in the standard cmake arguments
cmakeOptions.extend(std_cmake_args)
# Adjust the standard cmake arguments to what we want the build type, etc to be
# Adjust the standard cmake arguments to what we want the build
# type, etc to be
self.adjustBuildTypeParams_cmakeOptions(spec, cmakeOptions)
# Invoke cmake
cmake('..', *cmakeOptions)
@@ -195,56 +210,54 @@ def install(self, spec, prefix):
make()
make("install")
#if '+cray' in spec:
#if 'cray' in self.spec.architecture:
# if '+cray' in spec:
# if 'cray' in self.spec.architecture:
# if '+runtime' in spec:
# with working_dir('build_cbtf_cray_runtime', create=True):
# python_vers='%d.%d' % spec['python'].version[:2]
# cmake .. \
# -DCMAKE_BUILD_TYPE=Debug \
# -DTARGET_OS="cray" \
# -DRUNTIME_ONLY="true" \
# -DCMAKE_INSTALL_PREFIX=${CBTF_KRELL_PREFIX} \
# -DCMAKE_PREFIX_PATH=${CBTF_ROOT} \
# -DCBTF_DIR=${CBTF_ROOT} \
# -DBOOST_ROOT=${BOOST_INSTALL_PREFIX} \
# -DXERCESC_DIR=${XERCESC_INSTALL_PREFIX} \
# -DBINUTILS_DIR=${KRELL_ROOT} \
# -DLIBMONITOR_DIR=${KRELL_ROOT_COMPUTE} \
# -DLIBUNWIND_DIR=${KRELL_ROOT_COMPUTE} \
# -DPAPI_DIR=${PAPI_ROOT} \
# -DDYNINST_DIR=${DYNINST_CN_ROOT} \
# -DMRNET_DIR=${MRNET_INSTALL_PREFIX} \
# -DMPICH2_DIR=/opt/cray/mpt/7.0.1/gni/mpich2-gnu/48
# -DCMAKE_BUILD_TYPE=Debug \
# -DTARGET_OS="cray" \
# -DRUNTIME_ONLY="true" \
# -DCMAKE_INSTALL_PREFIX=${CBTF_KRELL_PREFIX} \
# -DCMAKE_PREFIX_PATH=${CBTF_ROOT} \
# -DCBTF_DIR=${CBTF_ROOT} \
# -DBOOST_ROOT=${BOOST_INSTALL_PREFIX} \
# -DXERCESC_DIR=${XERCESC_INSTALL_PREFIX} \
# -DBINUTILS_DIR=${KRELL_ROOT} \
# -DLIBMONITOR_DIR=${KRELL_ROOT_COMPUTE} \
# -DLIBUNWIND_DIR=${KRELL_ROOT_COMPUTE} \
# -DPAPI_DIR=${PAPI_ROOT} \
# -DDYNINST_DIR=${DYNINST_CN_ROOT} \
# -DMRNET_DIR=${MRNET_INSTALL_PREFIX} \
# -DMPICH2_DIR=/opt/cray/mpt/7.0.1/gni/mpich2-gnu/48
# else:
# with working_dir('build_cbtf_cray_frontend', create=True):
# python_vers='%d.%d' % spec['python'].version[:2]
# cmake .. \
# -DCMAKE_BUILD_TYPE=Debug \
# -DCMAKE_INSTALL_PREFIX=${CBTF_KRELL_PREFIX} \
# -DCMAKE_PREFIX_PATH=${CBTF_ROOT} \
# -DCBTF_DIR=${CBTF_ROOT} \
# -DRUNTIME_TARGET_OS="cray" \
# -DCBTF_KRELL_CN_RUNTIME_DIR=${CBTF_KRELL_CN_RUNTIME_ROOT} \
# -DCBTF_CN_RUNTIME_DIR=${CBTF_CN_RUNTIME_ROOT} \
# -DLIBMONITOR_CN_RUNTIME_DIR=${LIBMONITOR_CN_ROOT} \
# -DLIBUNWIND_CN_RUNTIME_DIR=${LIBUNWIND_CN_ROOT} \
# -DPAPI_CN_RUNTIME_DIR=${PAPI_CN_ROOT} \
# -DXERCESC_CN_RUNTIME_DIR=/${XERCESC_CN_ROOT} \
# -DMRNET_CN_RUNTIME_DIR=${MRNET_CN_ROOT} \
# -DBOOST_CN_RUNTIME_DIR=${BOOST_CN_ROOT} \
# -DDYNINST_CN_RUNTIME_DIR=${DYNINST_CN_ROOT} \
# -DBOOST_ROOT=/${KRELL_ROOT} \
# -DXERCESC_DIR=/${KRELL_ROOT} \
# -DBINUTILS_DIR=/${KRELL_ROOT} \
# -DLIBMONITOR_DIR=${KRELL_ROOT} \
# -DLIBUNWIND_DIR=${KRELL_ROOT} \
# -DPAPI_DIR=${PAPI_ROOT} \
# -DDYNINST_DIR=${KRELL_ROOT} \
# -DMRNET_DIR=${KRELL_ROOT} \
# -DMPICH2_DIR=/opt/cray/mpt/7.0.1/gni/mpich2-gnu/48
# -DCMAKE_BUILD_TYPE=Debug \
# -DCMAKE_INSTALL_PREFIX=${CBTF_KRELL_PREFIX} \
# -DCMAKE_PREFIX_PATH=${CBTF_ROOT} \
# -DCBTF_DIR=${CBTF_ROOT} \
# -DRUNTIME_TARGET_OS="cray" \
# -DCBTF_KRELL_CN_RUNTIME_DIR=${CBTF_KRELL_CN_RUNTIME_ROOT} \
# -DCBTF_CN_RUNTIME_DIR=${CBTF_CN_RUNTIME_ROOT} \
# -DLIBMONITOR_CN_RUNTIME_DIR=${LIBMONITOR_CN_ROOT} \
# -DLIBUNWIND_CN_RUNTIME_DIR=${LIBUNWIND_CN_ROOT} \
# -DPAPI_CN_RUNTIME_DIR=${PAPI_CN_ROOT} \
# -DXERCESC_CN_RUNTIME_DIR=/${XERCESC_CN_ROOT} \
# -DMRNET_CN_RUNTIME_DIR=${MRNET_CN_ROOT} \
# -DBOOST_CN_RUNTIME_DIR=${BOOST_CN_ROOT} \
# -DDYNINST_CN_RUNTIME_DIR=${DYNINST_CN_ROOT} \
# -DBOOST_ROOT=/${KRELL_ROOT} \
# -DXERCESC_DIR=/${KRELL_ROOT} \
# -DBINUTILS_DIR=/${KRELL_ROOT} \
# -DLIBMONITOR_DIR=${KRELL_ROOT} \
# -DLIBUNWIND_DIR=${KRELL_ROOT} \
# -DPAPI_DIR=${PAPI_ROOT} \
# -DDYNINST_DIR=${KRELL_ROOT} \
# -DMRNET_DIR=${KRELL_ROOT} \
# -DMPICH2_DIR=/opt/cray/mpt/7.0.1/gni/mpich2-gnu/48
# fi
#
# make("clean")
@@ -264,22 +277,22 @@ def install(self, spec, prefix):
# fi
#
# else:
# # Build cbtf-krell with cmake
# # Build cbtf-krell with cmake
# with working_dir('build_cbtf_krell', create=True):
# cmake('..',
# '-DCMAKE_BUILD_TYPE=Debug',
# '-DCMAKE_INSTALL_PREFIX=%s' % prefix,
# '-DCBTF_DIR=%s' % spec['cbtf'].prefix,
# '-DBINUTILS_DIR=%s' % spec['binutils'].prefix,
# '-DLIBMONITOR_DIR=%s' % spec['libmonitor'].prefix,
# '-DLIBUNWIND_DIR=%s' % spec['libunwind'].prefix,
# '-DPAPI_DIR=%s' % spec['papi'].prefix,
# '-DBOOST_DIR=%s' % spec['boost'].prefix,
# '-DMRNET_DIR=%s' % spec['mrnet'].prefix,
# '-DDYNINST_DIR=%s' % spec['dyninst'].prefix,
# '-DXERCESC_DIR=%s' % spec['xerces-c'].prefix,
# '-DOPENMPI_DIR=%s' % openmpi_prefix_path,
# '-DCMAKE_PREFIX_PATH=%s' % cmake_prefix_path,
# '-DCMAKE_INSTALL_PREFIX=%s' % prefix,
# '-DCBTF_DIR=%s' % spec['cbtf'].prefix,
# '-DBINUTILS_DIR=%s' % spec['binutils'].prefix,
# '-DLIBMONITOR_DIR=%s' % spec['libmonitor'].prefix,
# '-DLIBUNWIND_DIR=%s'% spec['libunwind'].prefix,
# '-DPAPI_DIR=%s' % spec['papi'].prefix,
# '-DBOOST_DIR=%s' % spec['boost'].prefix,
# '-DMRNET_DIR=%s' % spec['mrnet'].prefix,
# '-DDYNINST_DIR=%s' % spec['dyninst'].prefix,
# '-DXERCESC_DIR=%s' % spec['xerces-c'].prefix,
# '-DOPENMPI_DIR=%s' % openmpi_prefix_path,
# '-DCMAKE_PREFIX_PATH=%s' % cmake_prefix_path,
# *std_cmake_args)
#
# make("clean")

81
var/spack/repos/builtin/packages/cbtf-lanl/package.py
View File

@@ -22,7 +22,7 @@
# License along with this program; if not, write to the Free Software
# Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
##############################################################################
################################################################################
##########################################################################
# Copyright (c) 2015-2016 Krell Institute. All Rights Reserved.
#
# This program is free software; you can redistribute it and/or modify it under
@@ -38,22 +38,24 @@
# You should have received a copy of the GNU 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 CbtfLanl(Package):
"""CBTF LANL project contains a memory tool and data center type system command monitoring tool."""
"""CBTF LANL project contains a memory tool and data center type system
command monitoring tool."""
homepage = "http://sourceforge.net/p/cbtf/wiki/Home/"
# Mirror access template example
#url = "file:/g/g24/jeg/cbtf-lanl-1.5.tar.gz"
#version('1.5', 'c3f78f967b0a42c6734ce4be0e602426')
# url = "file:/g/g24/jeg/cbtf-lanl-1.5.tar.gz"
# version('1.5', 'c3f78f967b0a42c6734ce4be0e602426')
version('1.6', branch='master', git='http://git.code.sf.net/p/cbtf-lanl/cbtf-lanl')
version('1.6', branch='master',
git='http://git.code.sf.net/p/cbtf-lanl/cbtf-lanl')
depends_on("cmake@3.0.2")
depends_on("cmake@3.0.2", type='build')
# Dependencies for cbtf-krell
depends_on("mrnet@5.0.1:+lwthreads+krellpatch")
depends_on("xerces-c@3.1.1:")
@@ -63,11 +65,13 @@ class CbtfLanl(Package):
parallel = False
def adjustBuildTypeParams_cmakeOptions(self, spec, cmakeOptions):
# Sets build type parameters into cmakeOptions the options that will enable the cbtf-krell built type settings
# Sets build type parameters into cmakeOptions the options that will
# enable the cbtf-krell built type settings
compile_flags="-O2 -g"
compile_flags = "-O2 -g"
BuildTypeOptions = []
# Set CMAKE_BUILD_TYPE to what cbtf-krell wants it to be, not the stdcmakeargs
# Set CMAKE_BUILD_TYPE to what cbtf-krell wants it to be, not the
# stdcmakeargs
for word in cmakeOptions[:]:
if word.startswith('-DCMAKE_BUILD_TYPE'):
cmakeOptions.remove(word)
@@ -78,40 +82,43 @@ def adjustBuildTypeParams_cmakeOptions(self, spec, cmakeOptions):
if word.startswith('-DCMAKE_VERBOSE_MAKEFILE'):
cmakeOptions.remove(word)
BuildTypeOptions.extend([
'-DCMAKE_VERBOSE_MAKEFILE=ON',
'-DCMAKE_BUILD_TYPE=None',
'-DCMAKE_CXX_FLAGS=%s' % compile_flags,
'-DCMAKE_C_FLAGS=%s' % compile_flags
'-DCMAKE_VERBOSE_MAKEFILE=ON',
'-DCMAKE_BUILD_TYPE=None',
'-DCMAKE_CXX_FLAGS=%s' % compile_flags,
'-DCMAKE_C_FLAGS=%s' % compile_flags
])
cmakeOptions.extend(BuildTypeOptions)
def install(self, spec, prefix):
# Add in paths for finding package config files that tell us where to find these packages
cmake_prefix_path = join_path(spec['cbtf'].prefix) + ':' + join_path(spec['cbtf-krell'].prefix)
# Add in paths for finding package config files that tell us where to
# find these packages
cmake_prefix_path = join_path(
spec['cbtf'].prefix) + ':' + join_path(spec['cbtf-krell'].prefix)
with working_dir('build', create=True):
cmakeOptions = []
cmakeOptions.extend(['-DCMAKE_INSTALL_PREFIX=%s' % prefix,
'-DCBTF_DIR=%s' % spec['cbtf'].prefix,
'-DCBTF_KRELL_DIR=%s' % spec['cbtf-krell'].prefix,
'-DMRNET_DIR=%s' % spec['mrnet'].prefix,
'-DXERCESC_DIR=%s' % spec['xerces-c'].prefix,
'-DCMAKE_PREFIX_PATH=%s' % cmake_prefix_path,
'-DCMAKE_MODULE_PATH=%s' % join_path(prefix.share,'KrellInstitute','cmake')
])
with working_dir('build', create=True):
cmakeOptions = []
cmakeOptions.extend(
['-DCMAKE_INSTALL_PREFIX=%s' % prefix,
'-DCBTF_DIR=%s' % spec['cbtf'].prefix,
'-DCBTF_KRELL_DIR=%s' % spec['cbtf-krell'].prefix,
'-DMRNET_DIR=%s' % spec['mrnet'].prefix,
'-DXERCESC_DIR=%s' % spec['xerces-c'].prefix,
'-DCMAKE_PREFIX_PATH=%s' % cmake_prefix_path,
'-DCMAKE_MODULE_PATH=%s' % join_path(
prefix.share, 'KrellInstitute', 'cmake')])
# Add in the standard cmake arguments
cmakeOptions.extend(std_cmake_args)
# Add in the standard cmake arguments
cmakeOptions.extend(std_cmake_args)
# Adjust the standard cmake arguments to what we want the build type, etc to be
self.adjustBuildTypeParams_cmakeOptions(spec, cmakeOptions)
# Invoke cmake
cmake('..', *cmakeOptions)
# Adjust the standard cmake arguments to what we want the build
# type, etc to be
self.adjustBuildTypeParams_cmakeOptions(spec, cmakeOptions)
make("clean")
make()
make("install")
# Invoke cmake
cmake('..', *cmakeOptions)
make("clean")
make()
make("install")

131
var/spack/repos/builtin/packages/cbtf/package.py
View File

@@ -22,7 +22,7 @@
# License along with this program; if not, write to the Free Software
# Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
##############################################################################
################################################################################
##########################################################################
# Copyright (c) 2015-2016 Krell Institute. All Rights Reserved.
#
# This program is free software; you can redistribute it and/or modify it under
@@ -38,26 +38,32 @@
# You should have received a copy of the GNU 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 Cbtf(Package):
"""CBTF project contains the base code for CBTF that supports creating components,
component networks and the support to connect these components and component
networks into sequential and distributed network tools."""
"""CBTF project contains the base code for CBTF that supports creating
components, component networks and the support to connect these
components and component networks into sequential and distributed
network tools.
"""
homepage = "http://sourceforge.net/p/cbtf/wiki/Home"
# Mirror access template example
#url = "file:/home/jeg/cbtf-1.6.tar.gz"
#version('1.6', 'c1ef4e5aa4e470dffb042abdba0b9987')
# url = "file:/home/jeg/cbtf-1.6.tar.gz"
# version('1.6', 'c1ef4e5aa4e470dffb042abdba0b9987')
# Use when the git repository is available
version('1.6', branch='master', git='https://github.com/OpenSpeedShop/cbtf.git')
version('1.6', branch='master',
git='https://github.com/OpenSpeedShop/cbtf.git')
variant('runtime', default=False, description="build only the runtime libraries and collectors.")
variant('runtime', default=False,
description="build only the runtime libraries and collectors.")
depends_on("cmake@3.0.2")
depends_on("cmake@3.0.2", type='build')
depends_on("boost@1.50.0:")
depends_on("mrnet@5.0.1:+lwthreads+krellpatch")
depends_on("xerces-c@3.1.1:")
@@ -67,11 +73,13 @@ class Cbtf(Package):
parallel = False
def adjustBuildTypeParams_cmakeOptions(self, spec, cmakeOptions):
# Sets build type parameters into cmakeOptions the options that will enable the cbtf-krell built type settings
compile_flags="-O2 -g"
# Sets build type parameters into cmakeOptions the options that will
# enable the cbtf-krell built type settings
compile_flags = "-O2 -g"
BuildTypeOptions = []
# Set CMAKE_BUILD_TYPE to what cbtf-krell wants it to be, not the stdcmakeargs
# Set CMAKE_BUILD_TYPE to what cbtf-krell wants it to be, not the
# stdcmakeargs
for word in cmakeOptions[:]:
if word.startswith('-DCMAKE_BUILD_TYPE'):
cmakeOptions.remove(word)
@@ -80,61 +88,66 @@ def adjustBuildTypeParams_cmakeOptions(self, spec, cmakeOptions):
if word.startswith('-DCMAKE_C_FLAGS'):
cmakeOptions.remove(word)
BuildTypeOptions.extend([
'-DCMAKE_BUILD_TYPE=None',
'-DCMAKE_CXX_FLAGS=%s' % compile_flags,
'-DCMAKE_C_FLAGS=%s' % compile_flags
'-DCMAKE_BUILD_TYPE=None',
'-DCMAKE_CXX_FLAGS=%s' % compile_flags,
'-DCMAKE_C_FLAGS=%s' % compile_flags
])
cmakeOptions.extend(BuildTypeOptions)
def install(self, spec, prefix):
with working_dir('build', create=True):
with working_dir('build', create=True):
# Boost_NO_SYSTEM_PATHS Set to TRUE to suppress searching
# in system paths (or other locations outside of BOOST_ROOT
# or BOOST_INCLUDEDIR). Useful when specifying BOOST_ROOT.
# Defaults to OFF.
# Boost_NO_SYSTEM_PATHS Set to TRUE to suppress searching
# in system paths (or other locations outside of BOOST_ROOT
# or BOOST_INCLUDEDIR). Useful when specifying BOOST_ROOT.
# Defaults to OFF.
if '+runtime' in spec:
# Install message tag include file for use in Intel MIC cbtf-krell build
# FIXME
cmakeOptions = []
cmakeOptions.extend(['-DCMAKE_INSTALL_PREFIX=%s' % prefix,
'-DBoost_NO_SYSTEM_PATHS=TRUE',
'-DXERCESC_DIR=%s' % spec['xerces-c'].prefix,
'-DBOOST_ROOT=%s' % spec['boost'].prefix,
'-DMRNET_DIR=%s' % spec['mrnet'].prefix,
'-DCMAKE_MODULE_PATH=%s' % join_path(prefix.share,'KrellInstitute','cmake')
])
if '+runtime' in spec:
# Install message tag include file for use in Intel MIC
# cbtf-krell build
# FIXME
cmakeOptions = []
cmakeOptions.extend(
['-DCMAKE_INSTALL_PREFIX=%s' % prefix,
'-DBoost_NO_SYSTEM_PATHS=TRUE',
'-DXERCESC_DIR=%s' % spec['xerces-c'].prefix,
'-DBOOST_ROOT=%s' % spec['boost'].prefix,
'-DMRNET_DIR=%s' % spec['mrnet'].prefix,
'-DCMAKE_MODULE_PATH=%s' % join_path(
prefix.share, 'KrellInstitute', 'cmake')])
# Add in the standard cmake arguments
cmakeOptions.extend(std_cmake_args)
# Add in the standard cmake arguments
cmakeOptions.extend(std_cmake_args)
# Adjust the standard cmake arguments to what we want the build type, etc to be
self.adjustBuildTypeParams_cmakeOptions(spec, cmakeOptions)
# Invoke cmake
cmake('..', *cmakeOptions)
# Adjust the standard cmake arguments to what we want the build
# type, etc to be
self.adjustBuildTypeParams_cmakeOptions(spec, cmakeOptions)
else:
cmakeOptions = []
cmakeOptions.extend(['-DCMAKE_INSTALL_PREFIX=%s' % prefix,
'-DBoost_NO_SYSTEM_PATHS=TRUE',
'-DXERCESC_DIR=%s' % spec['xerces-c'].prefix,
'-DBOOST_ROOT=%s' % spec['boost'].prefix,
'-DMRNET_DIR=%s' % spec['mrnet'].prefix,
'-DCMAKE_MODULE_PATH=%s' % join_path(prefix.share,'KrellInstitute','cmake')
])
# Invoke cmake
cmake('..', *cmakeOptions)
# Add in the standard cmake arguments
cmakeOptions.extend(std_cmake_args)
else:
cmakeOptions = []
cmakeOptions.extend(
['-DCMAKE_INSTALL_PREFIX=%s' % prefix,
'-DBoost_NO_SYSTEM_PATHS=TRUE',
'-DXERCESC_DIR=%s' % spec['xerces-c'].prefix,
'-DBOOST_ROOT=%s' % spec['boost'].prefix,
'-DMRNET_DIR=%s' % spec['mrnet'].prefix,
'-DCMAKE_MODULE_PATH=%s' % join_path(
prefix.share, 'KrellInstitute', 'cmake')])
# Adjust the standard cmake arguments to what we want the build type, etc to be
self.adjustBuildTypeParams_cmakeOptions(spec, cmakeOptions)
# Invoke cmake
cmake('..', *cmakeOptions)
# Add in the standard cmake arguments
cmakeOptions.extend(std_cmake_args)
make("clean")
make()
make("install")
# Adjust the standard cmake arguments to what we want the build
# type, etc to be
self.adjustBuildTypeParams_cmakeOptions(spec, cmakeOptions)
# Invoke cmake
cmake('..', *cmakeOptions)
make("clean")
make()
make("install")

42
var/spack/repos/builtin/packages/cdo/package.py Normal file
View File

@@ -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 Cdo(Package):
"""CDO is a collection of command line Operators to manipulate and analyse
Climate and NWP model Data. """
homepage = "https://code.zmaw.de/projects/cdo"
url = "https://code.zmaw.de/attachments/download/10198/cdo-1.6.9.tar.gz"
version('1.6.9', 'bf0997bf20e812f35e10188a930e24e2')
depends_on('netcdf')
def install(self, spec, prefix):
configure('--prefix={0}'.format(prefix))
make()
make('install')

13
var/spack/repos/builtin/packages/cereal/package.py
View File

@@ -26,11 +26,20 @@
import os
import shutil
class Cereal(Package):
"""cereal is a header-only C++11 serialization library. cereal takes arbitrary data types and reversibly turns them into different representations, such as compact binary encodings, XML, or JSON. cereal was designed to be fast, light-weight, and easy to extend - it has no external dependencies and can be easily bundled with other code or used standalone."""
"""cereal is a header-only C++11 serialization library. cereal takes
arbitrary data types and reversibly turns them into different
representations, such as compact binary encodings, XML, or
JSON. cereal was designed to be fast, light-weight, and easy to
extend - it has no external dependencies and can be easily bundled
with other code or used standalone.
"""
homepage = "http://uscilab.github.io/cereal/"
url = "https://github.com/USCiLab/cereal/archive/v1.1.2.tar.gz"
version('1.2.0', 'e372c9814696481dbdb7d500e1410d2b')
version('1.1.2', '34d4ad174acbff005c36d4d10e48cbb9')
version('1.1.1', '0ceff308c38f37d5b5f6df3927451c27')
version('1.1.0', '9f2d5f72e935c54f4c6d23e954ce699f')
@@ -39,7 +48,7 @@ class Cereal(Package):
patch("Werror.patch")
depends_on("cmake @2.6.2:")
depends_on('cmake@2.6.2:', type='build')
def install(self, spec, prefix):
# Don't use -Werror

1
var/spack/repos/builtin/packages/cfitsio/package.py
View File

@@ -24,6 +24,7 @@
##############################################################################
from spack import *
class Cfitsio(Package):
"""
CFITSIO is a library of C and Fortran subroutines for reading and writing

24
var/spack/repos/builtin/packages/cgal/package.py
View File

@@ -27,10 +27,12 @@
class Cgal(Package):
"""
CGAL is a software project that provides easy access to efficient and reliable geometric algorithms in the form of
a C++ library. CGAL is used in various areas needing geometric computation, such as geographic information systems,
computer aided design, molecular biology, medical imaging, computer graphics, and robotics.
"""CGAL is a software project that provides easy access to efficient and
reliable geometric algorithms in the form of a C++ library. CGAL
is used in various areas needing geometric computation, such as
geographic information systems, computer aided design, molecular
biology, medical imaging, computer graphics, and robotics.
"""
homepage = 'http://www.cgal.org/'
url = 'https://github.com/CGAL/cgal/archive/releases/CGAL-4.7.tar.gz'
@@ -38,15 +40,18 @@ class Cgal(Package):
version('4.7', '4826714810f3b4c65cac96b90fb03b67')
version('4.6.3', 'e8ee2ecc8d2b09b94a121c09257b576d')
# Installation instructions : http://doc.cgal.org/latest/Manual/installation.html
variant('shared', default=True, description='Enables the build of shared libraries')
variant('debug', default=False, description='Builds a debug version of the libraries')
# Installation instructions :
# http://doc.cgal.org/latest/Manual/installation.html
variant('shared', default=True,
description='Enables the build of shared libraries')
variant('debug', default=False,
description='Builds a debug version of the libraries')
depends_on('boost')
depends_on('mpfr')
depends_on('gmp')
depends_on('zlib')
depends_on('cmake')
depends_on('cmake', type='build')
# FIXME : Qt5 dependency missing (needs Qt5 and OpenGL)
# FIXME : Optional third party libraries missing
@@ -55,7 +60,8 @@ def install(self, spec, prefix):
options = []
options.extend(std_cmake_args)
# CGAL supports only Release and Debug build type. Any other build type will raise an error at configure time
# CGAL supports only Release and Debug build type. Any other build type
# will raise an error at configure time
if '+debug' in spec:
options.append('-DCMAKE_BUILD_TYPE:STRING=Debug')
else:

4
var/spack/repos/builtin/packages/cgm/package.py
View File

@@ -24,6 +24,7 @@
##############################################################################
from spack import *
class Cgm(Package):
"""The Common Geometry Module, Argonne (CGMA) is a code library
which provides geometry functionality used for mesh generation and
@@ -33,7 +34,7 @@ class Cgm(Package):
version('13.1.1', '4e8dbc4ba8f65767b29f985f7a23b01f')
version('13.1.0', 'a6c7b22660f164ce893fb974f9cb2028')
version('13.1' , '95f724bda04919fc76818a5b7bc0b4ed')
version('13.1', '95f724bda04919fc76818a5b7bc0b4ed')
depends_on("mpi")
@@ -42,7 +43,6 @@ def patch(self):
'//\1',
'geom/parallel/CGMReadParallel.cpp')
def install(self, spec, prefix):
configure("--with-mpi",
"--prefix=%s" % prefix,

73
var/spack/repos/builtin/packages/cgns/package.py Normal file
View File

@@ -0,0 +1,73 @@
##############################################################################
# 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 Cgns(Package):
"""The CFD General Notation System (CGNS) provides a general, portable,
and extensible standard for the storage and retrieval of computational
fluid dynamics (CFD) analysis data."""
homepage = "http://cgns.github.io/"
url = "https://github.com/CGNS/CGNS/archive/v3.3.0.tar.gz"
version('3.3.0', '64e5e8d97144c1462bee9ea6b2a81d7f')
variant('hdf5', default=True, description='Enable HDF5 interface')
depends_on('cmake', type='build')
depends_on('hdf5', when='+hdf5')
def install(self, spec, prefix):
cmake_args = std_cmake_args[:]
if self.compiler.f77 and self.compiler.fc:
cmake_args.append('-DCGNS_ENABLE_FORTRAN=ON')
else:
cmake_args.append('-DCGNS_ENABLE_FORTRAN=OFF')
if '+hdf5' in spec:
cmake_args.extend([
'-DCGNS_ENABLE_HDF5=ON',
'-DHDF5_NEEDS_ZLIB=ON'
])
if spec.satisfies('^hdf5+mpi'):
cmake_args.append('-DHDF5_NEEDS_MPI=ON')
else:
cmake_args.append('-DHDF5_NEEDS_MPI=OFF')
if spec.satisfies('^hdf5+szip'):
cmake_args.append('-DHDF5_NEEDS_SZIP=ON')
else:
cmake_args.append('-DHDF5_NEEDS_SZIP=OFF')
else:
cmake_args.append('-DCGNS_ENABLE_HDF5=OFF')
with working_dir('spack-build', create=True):
cmake('..', *cmake_args)
make()
make('install')

8
var/spack/repos/builtin/packages/cityhash/package.py
View File

@@ -25,16 +25,18 @@
from spack import *
from spack.util.environment import *
class Cityhash(Package):
homepage = "https://github.com/google/cityhash"
url = "https://github.com/google/cityhash"
version('2013-07-31', git='https://github.com/google/cityhash.git', commit='8af9b8c2b889d80c22d6bc26ba0df1afb79a30db')
version('master', branch='master', git='https://github.com/google/cityhash.git')
version('2013-07-31', git='https://github.com/google/cityhash.git',
commit='8af9b8c2b889d80c22d6bc26ba0df1afb79a30db')
version('master', branch='master',
git='https://github.com/google/cityhash.git')
def install(self, spec, prefix):
configure('--enable-sse4.2', '--prefix=%s' % prefix)
make()
make("install")

16
var/spack/repos/builtin/packages/cleverleaf/package.py
View File

@@ -24,22 +24,26 @@
##############################################################################
from spack import *
class Cleverleaf(Package):
"""
CleverLeaf is a hydrodynamics mini-app that extends CloverLeaf with Adaptive
Mesh Refinement using the SAMRAI toolkit from Lawrence Livermore National
Laboratory. The primary goal of CleverLeaf is to evaluate the application of
AMR to the Lagrangian-Eulerian hydrodynamics scheme used by CloverLeaf.
"""CleverLeaf is a hydrodynamics mini-app that extends CloverLeaf with
Adaptive Mesh Refinement using the SAMRAI toolkit from Lawrence
Livermore National Laboratory. The primary goal of CleverLeaf is
to evaluate the application of AMR to the Lagrangian-Eulerian
hydrodynamics scheme used by CloverLeaf.
"""
homepage = "http://uk-mac.github.io/CleverLeaf/"
url = "https://github.com/UK-MAC/CleverLeaf/tarball/master"
version('develop', git='https://github.com/UK-MAC/CleverLeaf_ref.git', branch='develop')
version('develop', git='https://github.com/UK-MAC/CleverLeaf_ref.git',
branch='develop')
depends_on("SAMRAI@3.8.0:")
depends_on("hdf5+mpi")
depends_on("boost")
depends_on('cmake', type='build')
def install(self, spec, prefix):
cmake(*std_cmake_args)

1
var/spack/repos/builtin/packages/cloog/package.py
View File

@@ -24,6 +24,7 @@
##############################################################################
from spack import *
class Cloog(Package):
"""CLooG is a free software and library to generate code for
scanning Z-polyhedra. That is, it finds a code (e.g. in C,

18
var/spack/repos/builtin/packages/cmake/package.py
View File

@@ -24,12 +24,14 @@
##############################################################################
from spack import *
class Cmake(Package):
"""A cross-platform, open-source build system. CMake is a family of
tools designed to build, test and package software."""
homepage = 'https://www.cmake.org'
url = 'https://cmake.org/files/v3.4/cmake-3.4.3.tar.gz'
version('3.6.0', 'aa40fbecf49d99c083415c2411d12db9')
version('3.5.2', '701386a1b5ec95f8d1075ecf96383e02')
version('3.5.1', 'ca051f4a66375c89d1a524e726da0296')
version('3.5.0', '33c5d09d4c33d4ffcc63578a6ba8777e')
@@ -39,20 +41,24 @@ class Cmake(Package):
version('3.0.2', 'db4c687a31444a929d2fdc36c4dfb95f')
version('2.8.10.2', '097278785da7182ec0aea8769d06860c')
variant('ncurses', default=True, description='Enables the build of the ncurses gui')
variant('openssl', default=True, description="Enables CMake's OpenSSL features")
variant('ncurses', default=True,
description='Enables the build of the ncurses gui')
variant('openssl', default=True,
description="Enables CMake's OpenSSL features")
variant('qt', default=False, description='Enables the build of cmake-gui')
variant('doc', default=False, description='Enables the generation of html and man page documentation')
variant('doc', default=False,
description='Enables the generation of html and man page docs')
depends_on('ncurses', when='+ncurses')
depends_on('openssl', when='+openssl')
depends_on('qt', when='+qt')
depends_on('python@2.7.11:', when='+doc')
depends_on('py-sphinx', when='+doc')
depends_on('python@2.7.11:', when='+doc', type='build')
depends_on('py-sphinx', when='+doc', type='build')
def url_for_version(self, version):
"""Handle CMake's version-based custom URLs."""
return 'https://cmake.org/files/v%s/cmake-%s.tar.gz' % (version.up_to(2), version)
return 'https://cmake.org/files/v%s/cmake-%s.tar.gz' % (
version.up_to(2), version)
def validate(self, spec):
"""

9
var/spack/repos/builtin/packages/cmocka/package.py
View File

@@ -24,6 +24,7 @@
##############################################################################
from spack import *
class Cmocka(Package):
"""Unit-testing framework in pure C"""
homepage = "https://cmocka.org/"
@@ -32,9 +33,11 @@ class Cmocka(Package):
version('1.0.1', 'ed861e501a21a92b2af63e466df2015e')
parallel = False
depends_on('cmake', type='build')
def install(self, spec, prefix):
with working_dir('spack-build', create=True):
cmake('..', *std_cmake_args)
cmake('..', *std_cmake_args)
make()
make("install")
make()
make("install")

7
var/spack/repos/builtin/packages/cnmem/package.py
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@@ -24,6 +24,7 @@
##############################################################################
from spack import *
class Cnmem(Package):
"""CNMem mempool for CUDA devices"""
homepage = "https://github.com/NVIDIA/cnmem"
@@ -31,6 +32,6 @@ class Cnmem(Package):
version('git', git='https://github.com/NVIDIA/cnmem.git', branch="master")
def install(self, spec, prefix):
cmake('.',*std_cmake_args)
make()
make('install')
cmake('.', *std_cmake_args)
make()
make('install')

1
var/spack/repos/builtin/packages/coreutils/package.py
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@@ -24,6 +24,7 @@
##############################################################################
from spack import *
class Coreutils(Package):
"""The GNU Core Utilities are the basic file, shell and text
manipulation utilities of the GNU operating system. These are

178
var/spack/repos/builtin/packages/cp2k/package.py Normal file
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@@ -0,0 +1,178 @@
##############################################################################
# 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 os
import shutil
import copy
from spack import *
class Cp2k(Package):
"""CP2K is a quantum chemistry and solid state physics software package
that can perform atomistic simulations of solid state, liquid, molecular,
periodic, material, crystal, and biological systems
"""
homepage = 'https://www.cp2k.org'
url = 'https://sourceforge.net/projects/cp2k/files/cp2k-3.0.tar.bz2'
version('3.0', 'c05bc47335f68597a310b1ed75601d35')
variant('mpi', default=True, description='Enable MPI support')
variant('plumed', default=False, description='Enable PLUMED support')
depends_on('python', type='build')
depends_on('lapack')
depends_on('blas')
depends_on('fftw')
depends_on('mpi', when='+mpi')
depends_on('scalapack', when='+mpi')
depends_on('plumed+shared+mpi', when='+plumed+mpi')
depends_on('plumed+shared~mpi', when='+plumed~mpi')
# TODO : add dependency on libint
# TODO : add dependency on libsmm, libxsmm
# TODO : add dependency on elpa
# TODO : add dependency on CUDA
# TODO : add dependency on PEXSI
# TODO : add dependency on QUIP
# TODO : add dependency on libwannier90
parallel = False
def install(self, spec, prefix):
# Construct a proper filename for the architecture file
cp2k_architecture = '{0.architecture}-{0.compiler.name}'.format(spec)
cp2k_version = 'sopt' if '~mpi' in spec else 'popt'
makefile_basename = '.'.join([cp2k_architecture, cp2k_version])
makefile = join_path('arch', makefile_basename)
# Write the custom makefile
with open(makefile, 'w') as mkf:
# Optimization flags
optflags = {
'gcc': ['-O2',
'-ffast-math',
'-ffree-form',
'-ffree-line-length-none',
'-ftree-vectorize',
'-funroll-loops',
'-mtune=native'],
'intel': ['-O2',
'-pc64',
'-unroll',
'-heap-arrays 64']
}
cppflags = [
'-D__FFTW3',
'-I' + spec['fftw'].prefix.include
]
fcflags = copy.deepcopy(optflags[self.spec.compiler.name])
fcflags.extend([
'-I' + spec['fftw'].prefix.include
])
ldflags = ['-L' + spec['fftw'].prefix.lib]
libs = []
if '+plumed' in self.spec:
# Include Plumed.inc in the Makefile
mkf.write('include {0}\n'.format(
join_path(self.spec['plumed'].prefix.lib,
'plumed',
'src',
'lib',
'Plumed.inc')
))
# Add required macro
cppflags.extend(['-D__PLUMED2'])
libs.extend([
join_path(self.spec['plumed'].prefix.lib, 'libplumed.so')
])
mkf.write('CC = {0.compiler.cc}\n'.format(self))
if '%intel' in self.spec:
# CPP is a commented command in Intel arch of CP2K
# This is the hack through which cp2k developers avoid doing :
#
# ${CPP} <file>.F > <file>.f90
#
# and use `-fpp` instead
mkf.write('CPP = # {0.compiler.cc} -P\n'.format(self))
mkf.write('AR = xiar -r\n')
else:
mkf.write('CPP = {0.compiler.cc} -E\n'.format(self))
mkf.write('AR = ar -r\n')
fc = self.compiler.fc if '~mpi' in spec else self.spec['mpi'].mpifc
mkf.write('FC = {0}\n'.format(fc))
mkf.write('LD = {0}\n'.format(fc))
# Intel
if '%intel' in self.spec:
cppflags.extend([
'-D__INTEL_COMPILER',
'-D__MKL'
])
fcflags.extend([
'-diag-disable 8290,8291,10010,10212,11060',
'-free',
'-fpp'
])
# MPI
if '+mpi' in self.spec:
cppflags.extend([
'-D__parallel',
'-D__SCALAPACK'
])
ldflags.extend([
'-L' + spec['scalapack'].prefix.lib
])
libs.extend(spec['scalapack'].scalapack_shared_libs)
# LAPACK / BLAS
ldflags.extend([
'-L' + spec['lapack'].prefix.lib,
'-L' + spec['blas'].prefix.lib
])
libs.extend([
join_path(spec['fftw'].prefix.lib, 'libfftw3.so'),
spec['lapack'].lapack_shared_lib,
spec['blas'].blas_shared_lib
])
# Write compiler flags to file
mkf.write('CPPFLAGS = {0}\n'.format(' '.join(cppflags)))
mkf.write('FCFLAGS = {0}\n'.format(' '.join(fcflags)))
mkf.write('LDFLAGS = {0}\n'.format(' '.join(ldflags)))
mkf.write('LIBS = {0}\n'.format(' '.join(libs)))
with working_dir('makefiles'):
# Apparently the Makefile bases its paths on PWD
# so we need to set PWD = os.getcwd()
pwd_backup = env['PWD']
env['PWD'] = os.getcwd()
make('ARCH={0}'.format(cp2k_architecture),
'VERSION={0}'.format(cp2k_version))
env['PWD'] = pwd_backup
exe_dir = join_path('exe', cp2k_architecture)
shutil.copytree(exe_dir, self.prefix.bin)

1
var/spack/repos/builtin/packages/cppcheck/package.py
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@@ -24,6 +24,7 @@
##############################################################################
from spack import *
class Cppcheck(Package):
"""A tool for static C/C++ code analysis."""
homepage = "http://cppcheck.sourceforge.net/"

2
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@@ -24,6 +24,7 @@
##############################################################################
from spack import *
class Cram(Package):
"""Cram runs many small MPI jobs inside one large MPI job."""
homepage = "https://github.com/llnl/cram"
@@ -33,6 +34,7 @@ class Cram(Package):
extends('python')
depends_on("mpi")
depends_on('cmake', type='build')
def install(self, spec, prefix):
cmake(".", *std_cmake_args)

11
var/spack/repos/builtin/packages/cryptopp/package.py
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@@ -25,12 +25,15 @@
import glob
from spack import *
class Cryptopp(Package):
"""Crypto++ is an open-source C++ library of cryptographic schemes. The
library supports a number of different cryptography algorithms, including
authenticated encryption schemes (GCM, CCM), hash functions (SHA-1, SHA2),
public-key encryption (RSA, DSA), and a few obsolete/historical encryption
algorithms (MD5, Panama)."""
library supports a number of different cryptography algorithms,
including authenticated encryption schemes (GCM, CCM), hash
functions (SHA-1, SHA2), public-key encryption (RSA, DSA), and a
few obsolete/historical encryption algorithms (MD5, Panama).
"""
homepage = "http://www.cryptopp.com"
base_url = "http://www.cryptopp.com"

1
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@@ -24,6 +24,7 @@
##############################################################################
from spack import *
class Cscope(Package):
"""Cscope is a developer's tool for browsing source code."""
homepage = "http://http://cscope.sourceforge.net/"

9
var/spack/repos/builtin/packages/cube/package.py
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@@ -28,8 +28,8 @@
class Cube(Package):
"""
Cube the profile viewer for Score-P and Scalasca profiles. It displays a multi-dimensional performance space
consisting of the dimensions:
Cube the profile viewer for Score-P and Scalasca profiles. It displays a
multi-dimensional performance space consisting of the dimensions:
- performance metric
- call path
- system resource
@@ -38,14 +38,17 @@ class Cube(Package):
homepage = "http://www.scalasca.org/software/cube-4.x/download.html"
url = "http://apps.fz-juelich.de/scalasca/releases/cube/4.2/dist/cube-4.2.3.tar.gz"
version('4.3.4', '50f73060f55311cb12c5b3cb354d59fa',
url='http://apps.fz-juelich.de/scalasca/releases/cube/4.3/dist/cube-4.3.4.tar.gz')
version('4.3.3', '07e109248ed8ffc7bdcce614264a2909',
url='http://apps.fz-juelich.de/scalasca/releases/cube/4.3/dist/cube-4.3.3.tar.gz')
version('4.2.3', '8f95b9531f5a8f8134f279c2767c9b20',
url="http://apps.fz-juelich.de/scalasca/releases/cube/4.2/dist/cube-4.2.3.tar.gz")
# TODO : add variant that builds GUI on top of Qt
depends_on('zlib')
def install(self, spec, prefix):
configure_args = ["--prefix=%s" % prefix,
"--without-paraver",

38
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@@ -26,22 +26,27 @@
from glob import glob
import os
class Cuda(Package):
"""CUDA is a parallel computing platform and programming model invented by
NVIDIA. It enables dramatic increases in computing performance by harnessing
the power of the graphics processing unit (GPU).
"""CUDA is a parallel computing platform and programming model invented
by NVIDIA. It enables dramatic increases in computing performance by
harnessing the power of the graphics processing unit (GPU).
Note: NVIDIA does not provide a download URL for CUDA so you will need to
download it yourself. Go to https://developer.nvidia.com/cuda-downloads
and select your Operating System, Architecture, Distribution, and Version.
For the Installer Type, select runfile and click Download. Spack will search
your current directory for this file. Alternatively, add this file to a
mirror so that Spack can find it. For instructions on how to set up a mirror,
see http://software.llnl.gov/spack/mirrors.html
Note: NVIDIA does not provide a download URL for CUDA so you will
need to download it yourself. Go to
https://developer.nvidia.com/cuda-downloads and select your Operating
System, Architecture, Distribution, and Version. For the Installer
Type, select runfile and click Download. Spack will search your
current directory for this file. Alternatively, add this file to a
mirror so that Spack can find it. For instructions on how to set up a
mirror, see http://software.llnl.gov/spack/mirrors.html
Note: This package does not currently install the drivers necessary to run
CUDA. These will need to be installed manually. See:
http://docs.nvidia.com/cuda/cuda-getting-started-guide-for-linux for details."""
Note: This package does not currently install the drivers necessary
to run CUDA. These will need to be installed manually. See:
http://docs.nvidia.com/cuda/cuda-getting-started-guide-for-linux for
details.
"""
homepage = "http://www.nvidia.com/object/cuda_home_new.html"
@@ -50,15 +55,15 @@ class Cuda(Package):
version('6.5.14', '90b1b8f77313600cc294d9271741f4da', expand=False,
url="file://%s/cuda_6.5.14_linux_64.run" % os.getcwd())
def install(self, spec, prefix):
runfile = glob(os.path.join(self.stage.path, 'cuda*.run'))[0]
chmod = which('chmod')
chmod('+x', runfile)
runfile = which(runfile)
# Note: NVIDIA does not officially support many newer versions of compilers.
# For example, on CentOS 6, you must use GCC 4.4.7 or older. See:
# Note: NVIDIA does not officially support many newer versions of
# compilers. For example, on CentOS 6, you must use GCC 4.4.7 or
# older. See:
# http://docs.nvidia.com/cuda/cuda-installation-guide-linux/#system-requirements
# for details.
@@ -68,4 +73,3 @@ def install(self, spec, prefix):
'--toolkit', # install CUDA Toolkit
'--toolkitpath=%s' % prefix
)

3
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@@ -24,6 +24,7 @@
##############################################################################
from spack import *
class Curl(Package):
"""cURL is an open source command line tool and library for
transferring data with URL syntax"""
@@ -31,6 +32,8 @@ class Curl(Package):
homepage = "http://curl.haxx.se"
url = "http://curl.haxx.se/download/curl-7.46.0.tar.bz2"
version('7.50.1', '015f6a0217ca6f2c5442ca406476920b')
version('7.49.1', '6bb1f7af5b58b30e4e6414b8c1abccab')
version('7.47.1', '9ea3123449439bbd960cd25cf98796fb')
version('7.46.0', '9979f989a2a9930d10f1b3deeabc2148')
version('7.45.0', '62c1a352b28558f25ba6209214beadc8')

28
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@@ -25,33 +25,37 @@
from spack import *
import os
class Czmq(Package):
""" A C interface to the ZMQ library """
homepage = "http://czmq.zeromq.org"
url = "https://github.com/zeromq/czmq/archive/v3.0.2.tar.gz"
version('3.0.2', '23e9885f7ee3ce88d99d0425f52e9be1', url='https://github.com/zeromq/czmq/archive/v3.0.2.tar.gz')
version('3.0.2', '23e9885f7ee3ce88d99d0425f52e9be1',
url='https://github.com/zeromq/czmq/archive/v3.0.2.tar.gz')
depends_on('libtool')
depends_on('automake')
depends_on('autoconf')
depends_on('pkg-config')
depends_on('libtool', type='build')
depends_on('automake', type='build')
depends_on('autoconf', type='build')
depends_on('pkg-config', type='build')
depends_on('zeromq')
def install(self, spec, prefix):
bash = which("bash")
# Work around autogen.sh oddities
# bash = which("bash")
# bash("./autogen.sh")
mkdirp("config")
autoreconf = which("autoreconf")
autoreconf("--install", "--verbose", "--force",
"-I", "config",
"-I", os.path.join(spec['pkg-config'].prefix, "share", "aclocal"),
"-I", os.path.join(spec['automake'].prefix, "share", "aclocal"),
"-I", os.path.join(spec['libtool'].prefix, "share", "aclocal"),
)
"-I", "config",
"-I", os.path.join(spec['pkg-config'].prefix,
"share", "aclocal"),
"-I", os.path.join(spec['automake'].prefix,
"share", "aclocal"),
"-I", os.path.join(spec['libtool'].prefix,
"share", "aclocal"),
)
configure("--prefix=%s" % prefix)
make()
make("install")

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@@ -0,0 +1,28 @@
from spack import *
import os
from spack.pkg.builtin.intel import IntelInstaller
class Daal(IntelInstaller):
"""Intel Data Analytics Acceleration Library.
Note: You will have to add the download file to a
mirror so that Spack can find it. For instructions on how to set up a
mirror, see http://software.llnl.gov/spack/mirrors.html"""
homepage = "https://software.intel.com/en-us/daal"
version('2016.2.181', 'aad2aa70e5599ebfe6f85b29d8719d46',
url="file://%s/l_daal_2016.2.181.tgz" % os.getcwd())
version('2016.3.210', 'ad747c0dd97dace4cad03cf2266cad28',
url="file://%s/l_daal_2016.3.210.tgz" % os.getcwd())
def install(self, spec, prefix):
self.intel_prefix = os.path.join(prefix, "pkg")
IntelInstaller.install(self, spec, prefix)
daal_dir = os.path.join(self.intel_prefix, "daal")
for f in os.listdir(daal_dir):
os.symlink(os.path.join(daal_dir, f), os.path.join(self.prefix, f))

39
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@@ -26,17 +26,22 @@
class Dakota(Package):
"""
The Dakota toolkit provides a flexible, extensible interface between analysis codes and iterative systems
analysis methods. Dakota contains algorithms for:
"""The Dakota toolkit provides a flexible, extensible interface between
analysis codes and iterative systems analysis methods. Dakota
contains algorithms for:
- optimization with gradient and non gradient-based methods;
- uncertainty quantification with sampling, reliability, stochastic expansion, and epistemic methods;
- uncertainty quantification with sampling, reliability, stochastic
- expansion, and epistemic methods;
- parameter estimation with nonlinear least squares methods;
- sensitivity/variance analysis with design of experiments and parameter study methods.
- sensitivity/variance analysis with design of experiments and
- parameter study methods.
These capabilities may be used on their own or as components within
advanced strategies such as hybrid optimization, surrogate-based
optimization, mixed integer nonlinear programming, or optimization
under uncertainty.
These capabilities may be used on their own or as components within advanced strategies such as hybrid optimization,
surrogate-based optimization, mixed integer nonlinear programming, or optimization under uncertainty.
"""
homepage = 'https://dakota.sandia.gov/'
@@ -45,8 +50,10 @@ class Dakota(Package):
version('6.3', '05a58d209fae604af234c894c3f73f6d')
variant('debug', default=False, description='Builds a debug version of the libraries')
variant('shared', default=True, description='Enables the build of shared libraries')
variant('debug', default=False,
description='Builds a debug version of the libraries')
variant('shared', default=True,
description='Enables the build of shared libraries')
variant('mpi', default=True, description='Activates MPI support')
depends_on('blas')
@@ -55,6 +62,7 @@ class Dakota(Package):
depends_on('python')
depends_on('boost')
depends_on('cmake', type='build')
def url_for_version(self, version):
return Dakota._url_str.format(version=version)
@@ -63,12 +71,17 @@ def install(self, spec, prefix):
options = []
options.extend(std_cmake_args)
options.extend(['-DCMAKE_BUILD_TYPE:STRING=%s' % ('Debug' if '+debug' in spec else 'Release'),
'-DBUILD_SHARED_LIBS:BOOL=%s' % ('ON' if '+shared' in spec else 'OFF')])
options.extend([
'-DCMAKE_BUILD_TYPE:STRING=%s' % (
'Debug' if '+debug' in spec else 'Release'),
'-DBUILD_SHARED_LIBS:BOOL=%s' % (
'ON' if '+shared' in spec else 'OFF')])
if '+mpi' in spec:
options.extend(['-DDAKOTA_HAVE_MPI:BOOL=ON',
'-DMPI_CXX_COMPILER:STRING=%s' % join_path(spec['mpi'].prefix.bin, 'mpicxx')])
options.extend([
'-DDAKOTA_HAVE_MPI:BOOL=ON',
'-DMPI_CXX_COMPILER:STRING=%s' % join_path(
spec['mpi'].prefix.bin, 'mpicxx')])
build_directory = join_path(self.stage.path, 'spack-build')
source_directory = self.stage.source_path

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var/spack/repos/builtin/packages/damselfly/package.py
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@@ -24,15 +24,19 @@
##############################################################################
from spack import *
class Damselfly(Package):
"""Damselfly is a model-based parallel network simulator."""
homepage = "https://github.com/llnl/damselfly"
url = "https://github.com/llnl/damselfly"
version('1.0', '05cf7e2d8ece4408c0f2abb7ab63fd74c0d62895', git='https://github.com/llnl/damselfly.git', tag='v1.0')
version('1.0', '05cf7e2d8ece4408c0f2abb7ab63fd74c0d62895',
git='https://github.com/llnl/damselfly.git', tag='v1.0')
depends_on('cmake', type='build')
def install(self, spec, prefix):
with working_dir('spack-build', create=True):
cmake('-DCMAKE_BUILD_TYPE=release', '..', *std_cmake_args)
make()
make('install')
cmake('-DCMAKE_BUILD_TYPE=release', '..', *std_cmake_args)
make()
make('install')

45
var/spack/repos/builtin/packages/datamash/package.py Normal file
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@@ -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 Datamash(Package):
"""
GNU datamash is a command-line program which performs basic numeric,
textual and statistical operations on input textual data files.
"""
homepage = "https://www.gnu.org/software/datamash/"
url = "http://ftp.gnu.org/gnu/datamash/datamash-1.0.5.tar.gz"
version('1.1.0', '79a6affca08107a095e97e4237fc8775')
version('1.0.7', '9f317bab07454032ba9c068e7f17b04b')
version('1.0.6', 'ff26fdef0f343cb695cf1853e14a1a5b')
version('1.0.5', '9a29549dc7feca49fdc5fab696614e11')
def install(self, spec, prefix):
configure('--prefix=%s' % prefix)
make()
make("install")

1
var/spack/repos/builtin/packages/dbus/package.py
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@@ -24,6 +24,7 @@
##############################################################################
from spack import *
class Dbus(Package):
"""D-Bus is a message bus system, a simple way for applications to
talk to one another. D-Bus supplies both a system daemon (for

296
var/spack/repos/builtin/packages/dealii/package.py
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@@ -37,30 +37,53 @@ class Dealii(Package):
version('8.3.0', 'fc6cdcb16309ef4bea338a4f014de6fa')
version('8.2.1', '71c728dbec14f371297cd405776ccf08')
version('8.1.0', 'aa8fadc2ce5eb674f44f997461bf668d')
version('dev', git='https://github.com/dealii/dealii.git')
version('develop', git='https://github.com/dealii/dealii.git')
variant('mpi', default=True, description='Compile with MPI')
variant('arpack', default=True, description='Compile with Arpack and PArpack (only with MPI)')
variant('doc', default=False, description='Compile with documentation')
variant('arpack', default=True,
description='Compile with Arpack and PArpack (only with MPI)')
variant('doc', default=False,
description='Compile with documentation')
variant('gsl', default=True, description='Compile with GSL')
variant('hdf5', default=True, description='Compile with HDF5 (only with MPI)')
variant('hdf5', default=True,
description='Compile with HDF5 (only with MPI)')
variant('metis', default=True, description='Compile with Metis')
variant('netcdf', default=True, description='Compile with Netcdf (only with MPI)')
variant('netcdf', default=True,
description='Compile with Netcdf (only with MPI)')
variant('oce', default=True, description='Compile with OCE')
variant('p4est', default=True, description='Compile with P4est (only with MPI)')
variant('petsc', default=True, description='Compile with Petsc (only with MPI)')
variant('slepc', default=True, description='Compile with Slepc (only with Petsc and MPI)')
variant('trilinos', default=True, description='Compile with Trilinos (only with MPI)')
variant('p4est', default=True,
description='Compile with P4est (only with MPI)')
variant('petsc', default=True,
description='Compile with Petsc (only with MPI)')
variant('slepc', default=True,
description='Compile with Slepc (only with Petsc and MPI)')
variant('trilinos', default=True,
description='Compile with Trilinos (only with MPI)')
variant('python', default=True,
description='Compile with Python bindings')
# required dependencies, light version
depends_on("blas")
# Boost 1.58 is blacklisted, see
# https://github.com/dealii/dealii/issues/1591
# Require at least 1.59
depends_on("boost@1.59.0:+thread+system+serialization+iostreams", when='~mpi') # NOQA: ignore=E501
depends_on("boost@1.59.0:+mpi+thread+system+serialization+iostreams", when='+mpi') # NOQA: ignore=E501
# +python won't affect @:8.4.1
depends_on("boost@1.59.0:+thread+system+serialization+iostreams",
when='@:8.4.1~mpi')
depends_on("boost@1.59.0:+thread+system+serialization+iostreams+mpi",
when='@:8.4.1+mpi')
# since @8.5.0: (and @develop) python bindings are introduced:
depends_on("boost@1.59.0:+thread+system+serialization+iostreams",
when='@8.5.0:~mpi~python')
depends_on("boost@1.59.0:+thread+system+serialization+iostreams+mpi",
when='@8.5.0:+mpi~python')
depends_on("boost@1.59.0:+thread+system+serialization+iostreams+python",
when='@8.5.0:~mpi+python')
depends_on(
"boost@1.59.0:+thread+system+serialization+iostreams+mpi+python",
when='@8.5.0:+mpi+python')
depends_on("bzip2")
depends_on("cmake")
depends_on("cmake", type='build')
depends_on("lapack")
depends_on("muparser")
depends_on("suite-sparse")
@@ -73,20 +96,21 @@ class Dealii(Package):
depends_on("doxygen+graphviz", when='+doc')
depends_on("graphviz", when='+doc')
depends_on("gsl", when='@8.5.0:+gsl')
depends_on("gsl", when='@dev+gsl')
depends_on("hdf5+mpi", when='+hdf5+mpi')
depends_on("metis@5:", when='+metis')
depends_on("netcdf+mpi", when="+netcdf+mpi")
depends_on("netcdf-cxx", when='+netcdf+mpi')
depends_on("oce", when='+oce')
depends_on("p4est", when='+p4est+mpi')
depends_on("petsc+mpi", when='+petsc+mpi')
depends_on("slepc", when='+slepc+petsc+mpi')
depends_on("petsc+mpi", when='@8.5.0:+petsc+mpi')
depends_on("slepc", when='@8.5.0:+slepc+petsc+mpi')
depends_on("petsc@:3.6.4+mpi", when='@:8.4.1+petsc+mpi')
depends_on("slepc@:3.6.3", when='@:8.4.1+slepc+petsc+mpi')
depends_on("trilinos", when='+trilinos+mpi')
# developer dependnecies
depends_on("numdiff", when='@dev')
depends_on("astyle@2.04", when='@dev')
depends_on("numdiff", when='@develop')
depends_on("astyle@2.04", when='@develop')
def install(self, spec, prefix):
options = []
@@ -108,18 +132,33 @@ def install(self, spec, prefix):
# of Spack's. Be more specific to avoid this.
# Note that both lapack and blas are provided in -DLAPACK_XYZ.
'-DLAPACK_FOUND=true',
'-DLAPACK_INCLUDE_DIRS=%s;%s' %
(spec['lapack'].prefix.include,
spec['blas'].prefix.include),
'-DLAPACK_LIBRARIES=%s;%s' %
(spec['lapack'].lapack_shared_lib,
spec['blas'].blas_shared_lib),
'-DLAPACK_INCLUDE_DIRS=%s;%s' % (
spec['lapack'].prefix.include, spec['blas'].prefix.include),
'-DLAPACK_LIBRARIES=%s;%s' % (
spec['lapack'].lapack_shared_lib,
spec['blas'].blas_shared_lib),
'-DMUPARSER_DIR=%s' % spec['muparser'].prefix,
'-DUMFPACK_DIR=%s' % spec['suite-sparse'].prefix,
'-DTBB_DIR=%s' % spec['tbb'].prefix,
'-DZLIB_DIR=%s' % spec['zlib'].prefix
])
if spec.satisfies('@8.5.0:'):
options.extend([
'-DDEAL_II_COMPONENT_PYTHON_BINDINGS=%s' %
('ON' if '+python' in spec else 'OFF')
])
# Set directory structure:
if spec.satisfies('@:8.2.1'):
options.extend(['-DDEAL_II_COMPONENT_COMPAT_FILES=OFF'])
else:
options.extend([
'-DDEAL_II_EXAMPLES_RELDIR=share/deal.II/examples',
'-DDEAL_II_DOCREADME_RELDIR=share/deal.II/',
'-DDEAL_II_DOCHTML_RELDIR=share/deal.II/doc'
])
# MPI
if '+mpi' in spec:
options.extend([
@@ -135,7 +174,8 @@ def install(self, spec, prefix):
# Optional dependencies for which librariy names are the same as CMake
# variables:
for library in ('gsl', 'hdf5', 'p4est', 'petsc', 'slepc', 'trilinos', 'metis'): # NOQA: ignore=E501
for library in (
'gsl', 'hdf5', 'p4est', 'petsc', 'slepc', 'trilinos', 'metis'):
if library in spec:
options.extend([
'-D%s_DIR=%s' % (library.upper(), spec[library].prefix),
@@ -168,14 +208,14 @@ def install(self, spec, prefix):
if '+netcdf' in spec:
options.extend([
'-DNETCDF_FOUND=true',
'-DNETCDF_LIBRARIES=%s;%s' %
(join_path(spec['netcdf-cxx'].prefix.lib,
'libnetcdf_c++.%s' % dsuf),
join_path(spec['netcdf'].prefix.lib,
'libnetcdf.%s' % dsuf)),
'-DNETCDF_INCLUDE_DIRS=%s;%s' %
(spec['netcdf-cxx'].prefix.include,
spec['netcdf'].prefix.include),
'-DNETCDF_LIBRARIES=%s;%s' % (
join_path(spec['netcdf-cxx'].prefix.lib,
'libnetcdf_c++.%s' % dsuf),
join_path(spec['netcdf'].prefix.lib,
'libnetcdf.%s' % dsuf)),
'-DNETCDF_INCLUDE_DIRS=%s;%s' % (
spec['netcdf-cxx'].prefix.include,
spec['netcdf'].prefix.include),
])
else:
options.extend([
@@ -194,115 +234,123 @@ def install(self, spec, prefix):
])
cmake('.', *options)
make()
make("test")
if self.run_tests:
make("test")
make("install")
# run some MPI examples with different solvers from PETSc and Trilinos
env['DEAL_II_DIR'] = prefix
print('=====================================')
print('============ EXAMPLES ===============')
print('=====================================')
# take bare-bones step-3
print('=====================================')
print('============ Step-3 =================')
print('=====================================')
with working_dir('examples/step-3'):
cmake('.')
make('release')
make('run', parallel=False)
# An example which uses Metis + PETSc
# FIXME: switch step-18 to MPI
with working_dir('examples/step-18'):
if self.run_tests:
env['DEAL_II_DIR'] = prefix
print('=====================================')
print('============= Step-18 ===============')
print('============ EXAMPLES ===============')
print('=====================================')
# list the number of cycles to speed up
filter_file(r'(end_time = 10;)', ('end_time = 3;'), 'step-18.cc')
if '^petsc' in spec and '^metis' in spec:
# take bare-bones step-3
print('=====================================')
print('============ Step-3 =================')
print('=====================================')
with working_dir('examples/step-3'):
cmake('.')
make('release')
make('run', parallel=False)
# take step-40 which can use both PETSc and Trilinos
# FIXME: switch step-40 to MPI run
with working_dir('examples/step-40'):
print('=====================================')
print('========== Step-40 PETSc ============')
print('=====================================')
# list the number of cycles to speed up
filter_file(r'(const unsigned int n_cycles = 8;)',
('const unsigned int n_cycles = 2;'), 'step-40.cc')
cmake('.')
if '^petsc' in spec:
make('release')
make('run', parallel=False)
print('=====================================')
print('========= Step-40 Trilinos ==========')
print('=====================================')
# change Linear Algebra to Trilinos
# The below filter_file should be different for versions
# before and after 8.4.0
if spec.satisfies('@8.4.0:'):
filter_file(r'(\/\/ #define FORCE_USE_OF_TRILINOS.*)',
('#define FORCE_USE_OF_TRILINOS'), 'step-40.cc')
else:
filter_file(r'(#define USE_PETSC_LA.*)',
('// #define USE_PETSC_LA'), 'step-40.cc')
if '^trilinos+hypre' in spec:
make('release')
make('run', parallel=False)
# the rest of the tests on step 40 only works for
# dealii version 8.4.0 and after
if spec.satisfies('@8.4.0:'):
# An example which uses Metis + PETSc
# FIXME: switch step-18 to MPI
with working_dir('examples/step-18'):
print('=====================================')
print('=== Step-40 Trilinos SuperluDist ====')
print('============= Step-18 ===============')
print('=====================================')
# change to direct solvers
filter_file(r'(LA::SolverCG solver\(solver_control\);)', ('TrilinosWrappers::SolverDirect::AdditionalData data(false,"Amesos_Superludist"); TrilinosWrappers::SolverDirect solver(solver_control,data);'), 'step-40.cc') # NOQA: ignore=E501
filter_file(r'(LA::MPI::PreconditionAMG preconditioner;)',
(''), 'step-40.cc')
filter_file(r'(LA::MPI::PreconditionAMG::AdditionalData data;)',
(''), 'step-40.cc')
filter_file(r'(preconditioner.initialize\(system_matrix, data\);)',
(''), 'step-40.cc')
filter_file(r'(solver\.solve \(system_matrix, completely_distributed_solution, system_rhs,)', ('solver.solve (system_matrix, completely_distributed_solution, system_rhs);'), 'step-40.cc') # NOQA: ignore=E501
filter_file(r'(preconditioner\);)', (''), 'step-40.cc')
if '^trilinos+superlu-dist' in spec:
make('release')
make('run', paralle=False)
print('=====================================')
print('====== Step-40 Trilinos MUMPS =======')
print('=====================================')
# switch to Mumps
filter_file(r'(Amesos_Superludist)',
('Amesos_Mumps'), 'step-40.cc')
if '^trilinos+mumps' in spec:
# list the number of cycles to speed up
filter_file(r'(end_time = 10;)', ('end_time = 3;'),
'step-18.cc')
if '^petsc' in spec and '^metis' in spec:
cmake('.')
make('release')
make('run', parallel=False)
print('=====================================')
print('============ Step-36 ================')
print('=====================================')
with working_dir('examples/step-36'):
if 'slepc' in spec:
# take step-40 which can use both PETSc and Trilinos
# FIXME: switch step-40 to MPI run
with working_dir('examples/step-40'):
print('=====================================')
print('========== Step-40 PETSc ============')
print('=====================================')
# list the number of cycles to speed up
filter_file(r'(const unsigned int n_cycles = 8;)',
('const unsigned int n_cycles = 2;'), 'step-40.cc')
cmake('.')
make('release')
make('run', parallel=False)
if '^petsc' in spec:
make('release')
make('run', parallel=False)
print('=====================================')
print('============ Step-54 ================')
print('=====================================')
with working_dir('examples/step-54'):
if 'oce' in spec:
cmake('.')
make('release')
make('run', parallel=False)
print('=====================================')
print('========= Step-40 Trilinos ==========')
print('=====================================')
# change Linear Algebra to Trilinos
# The below filter_file should be different for versions
# before and after 8.4.0
if spec.satisfies('@8.4.0:'):
filter_file(r'(\/\/ #define FORCE_USE_OF_TRILINOS.*)',
('#define FORCE_USE_OF_TRILINOS'),
'step-40.cc')
else:
filter_file(r'(#define USE_PETSC_LA.*)',
('// #define USE_PETSC_LA'), 'step-40.cc')
if '^trilinos+hypre' in spec:
make('release')
make('run', parallel=False)
# the rest of the tests on step 40 only works for
# dealii version 8.4.0 and after
if spec.satisfies('@8.4.0:'):
print('=====================================')
print('=== Step-40 Trilinos SuperluDist ====')
print('=====================================')
# change to direct solvers
filter_file(r'(LA::SolverCG solver\(solver_control\);)', ('TrilinosWrappers::SolverDirect::AdditionalData data(false,"Amesos_Superludist"); TrilinosWrappers::SolverDirect solver(solver_control,data);'), 'step-40.cc') # noqa
filter_file(
r'(LA::MPI::PreconditionAMG preconditioner;)',
(''), 'step-40.cc')
filter_file(
r'(LA::MPI::PreconditionAMG::AdditionalData data;)',
(''), 'step-40.cc')
filter_file(
r'(preconditioner.initialize\(system_matrix, data\);)',
(''), 'step-40.cc')
filter_file(
r'(solver\.solve \(system_matrix, completely_distributed_solution, system_rhs,)', ('solver.solve (system_matrix, completely_distributed_solution, system_rhs);'), 'step-40.cc') # noqa
filter_file(
r'(preconditioner\);)', (''), 'step-40.cc')
if '^trilinos+superlu-dist' in spec:
make('release')
make('run', paralle=False)
print('=====================================')
print('====== Step-40 Trilinos MUMPS =======')
print('=====================================')
# switch to Mumps
filter_file(r'(Amesos_Superludist)',
('Amesos_Mumps'), 'step-40.cc')
if '^trilinos+mumps' in spec:
make('release')
make('run', parallel=False)
print('=====================================')
print('============ Step-36 ================')
print('=====================================')
with working_dir('examples/step-36'):
if 'slepc' in spec:
cmake('.')
make('release')
make('run', parallel=False)
print('=====================================')
print('============ Step-54 ================')
print('=====================================')
with working_dir('examples/step-54'):
if 'oce' in spec:
cmake('.')
make('release')
make('run', parallel=False)
def setup_environment(self, spack_env, env):
env.set('DEAL_II_DIR', self.prefix)

5
var/spack/repos/builtin/packages/dia/package.py
View File

@@ -24,6 +24,7 @@
##############################################################################
from spack import *
class Dia(Package):
"""Dia is a program for drawing structured diagrams."""
homepage = 'https://wiki.gnome.org/Apps/Dia'
@@ -31,10 +32,10 @@ class Dia(Package):
version('0.97.3', '0e744a0f6a6c4cb6a089e4d955392c3c')
depends_on('intltool')
depends_on('intltool', type='build')
depends_on('gtkplus@2.6.0:')
depends_on('cairo')
#depends_on('libart') # optional dependency, not yet supported by spack.
# depends_on('libart') # optional dependency, not yet supported by spack.
depends_on('libpng')
depends_on('libxslt')
depends_on('python')

14
var/spack/repos/builtin/packages/docbook-xml/package.py
View File

@@ -23,7 +23,6 @@
# Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
##############################################################################
import os
import glob
from spack import *
@@ -35,9 +34,10 @@ class DocbookXml(Package):
version('4.5', '03083e288e87a7e829e437358da7ef9e')
def install(self, spec, prefix):
cp = which('cp')
install_args = ['-a', '-t', prefix]
install_args.extend(glob.glob('*'))
cp(*install_args)
for item in os.listdir('.'):
src = os.path.abspath(item)
dst = os.path.join(prefix, item)
if os.path.isdir(item):
install_tree(src, dst, symlinks=True)
else:
install(src, dst)

11
var/spack/repos/builtin/packages/doxygen/package.py
View File

@@ -39,14 +39,15 @@ class Doxygen(Package):
version('1.8.10', '79767ccd986f12a0f949015efb5f058f')
# graphviz appears to be a run-time optional dependency
variant('graphviz', default=True, description='Build with dot command support from Graphviz.') # NOQA: ignore=E501
variant('graphviz', default=True,
description='Build with dot command support from Graphviz.')
depends_on("cmake@2.8.12:")
depends_on("flex")
depends_on("bison")
depends_on("cmake@2.8.12:", type='build')
depends_on("flex", type='build')
depends_on("bison", type='build')
# optional dependencies
depends_on("graphviz", when="+graphviz")
depends_on("graphviz", when="+graphviz", type='run')
def install(self, spec, prefix):
cmake('.', *std_cmake_args)

1
var/spack/repos/builtin/packages/dri2proto/package.py
View File

@@ -24,6 +24,7 @@
##############################################################################
from spack import *
class Dri2proto(Package):
"""DRI2 Protocol Headers."""
homepage = "http://http://cgit.freedesktop.org/xorg/proto/dri2proto/"

2
var/spack/repos/builtin/packages/dtcmp/package.py
View File

@@ -22,9 +22,9 @@
# 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 os
from spack import *
class Dtcmp(Package):
"""The Datatype Comparison Library provides comparison operations and
parallel sort algorithms for MPI applications."""

12
var/spack/repos/builtin/packages/dyninst/package.py
View File

@@ -24,6 +24,7 @@
##############################################################################
from spack import *
class Dyninst(Package):
"""API for dynamic binary instrumentation. Modify programs while they
are executing without recompiling, re-linking, or re-executing."""
@@ -43,6 +44,7 @@ class Dyninst(Package):
depends_on("libelf")
depends_on("libdwarf")
depends_on("boost@1.42:")
depends_on('cmake', type='build')
# new version uses cmake
def install(self, spec, prefix):
@@ -54,16 +56,18 @@ def install(self, spec, prefix):
'-DBoost_INCLUDE_DIR=%s' % spec['boost'].prefix.include,
'-DBoost_LIBRARY_DIR=%s' % spec['boost'].prefix.lib,
'-DBoost_NO_SYSTEM_PATHS=TRUE',
'-DLIBELF_INCLUDE_DIR=%s' % join_path(libelf.include, 'libelf'),
'-DLIBELF_LIBRARIES=%s' % join_path(libelf.lib, 'libelf.so'),
'-DLIBELF_INCLUDE_DIR=%s' % join_path(
libelf.include, 'libelf'),
'-DLIBELF_LIBRARIES=%s' % join_path(
libelf.lib, 'libelf.so'),
'-DLIBDWARF_INCLUDE_DIR=%s' % libdwarf.include,
'-DLIBDWARF_LIBRARIES=%s' % join_path(libdwarf.lib, 'libdwarf.so'),
'-DLIBDWARF_LIBRARIES=%s' % join_path(
libdwarf.lib, 'libdwarf.so'),
*std_cmake_args)
make()
make("install")
@when('@:8.1')
def install(self, spec, prefix):
configure("--prefix=" + prefix)

23
var/spack/repos/builtin/packages/eigen/package.py
View File

@@ -22,36 +22,41 @@
# 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 Eigen(Package):
"""
Eigen is a C++ template library for linear algebra: matrices, vectors, numerical solvers, and related algorithms
Eigen is a C++ template library for linear algebra
Matrices, vectors, numerical solvers, and related algorithms
"""
homepage = 'http://eigen.tuxfamily.org/'
url = 'http://bitbucket.org/eigen/eigen/get/3.2.7.tar.bz2'
version('3.2.7', 'cc1bacbad97558b97da6b77c9644f184', url='http://bitbucket.org/eigen/eigen/get/3.2.7.tar.bz2')
version('3.2.7', 'cc1bacbad97558b97da6b77c9644f184',
url='http://bitbucket.org/eigen/eigen/get/3.2.7.tar.bz2')
variant('debug', default=False, description='Builds the library in debug mode')
variant('debug', default=False,
description='Builds the library in debug mode')
variant('metis', default=True, description='Enables metis backend')
variant('scotch', default=True, description='Enables scotch backend')
variant('fftw', default=True, description='Enables FFTW backend')
variant('suitesparse', default=True, description='Enables SuiteSparse support')
variant('suitesparse', default=True,
description='Enables SuiteSparse support')
variant('mpfr', default=True,
description='Enables support for multi-precisions FP via mpfr')
# TODO : dependency on googlehash, superlu, adolc missing
depends_on('cmake')
depends_on('cmake', type='build')
depends_on('metis@5:', when='+metis')
depends_on('scotch', when='+scotch')
depends_on('fftw', when='+fftw')
depends_on('suite-sparse', when='+suitesparse')
depends_on('mpfr@2.3.0:') # Eigen 3.2.7 requires at least 2.3.0
depends_on('gmp')
depends_on('mpfr@2.3.0:', when="+mpfr")
depends_on('gmp', when="+mpfr")
def install(self, spec, prefix):

2
var/spack/repos/builtin/packages/elfutils/package.py
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@@ -24,6 +24,7 @@
##############################################################################
from spack import *
class Elfutils(Package):
"""elfutils is a collection of various binary tools such as
eu-objdump, eu-readelf, and other utilities that allow you to
@@ -47,4 +48,3 @@ def install(self, spec, prefix):
configure('--prefix=%s' % prefix, '--enable-maintainer-mode')
make()
make("install")

3
var/spack/repos/builtin/packages/elpa/package.py
View File

@@ -34,7 +34,8 @@ class Elpa(Package):
homepage = 'http://elpa.mpcdf.mpg.de/'
url = 'http://elpa.mpcdf.mpg.de/elpa-2015.11.001.tar.gz'
version('2015.11.001', 'de0f35b7ee7c971fd0dca35c900b87e6', url='http://elpa.mpcdf.mpg.de/elpa-2015.11.001.tar.gz')
version('2015.11.001', 'de0f35b7ee7c971fd0dca35c900b87e6',
url='http://elpa.mpcdf.mpg.de/elpa-2015.11.001.tar.gz')
variant('openmp', default=False, description='Activates OpenMP support')

36
var/spack/repos/builtin/packages/emacs/package.py
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@@ -23,23 +23,45 @@
# Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
##############################################################################
from spack import *
import llnl.util.tty as tty
class Emacs(Package):
"""The Emacs programmable text editor."""
homepage = "https://www.gnu.org/software/emacs"
url = "http://ftp.gnu.org/gnu/emacs/emacs-24.5.tar.gz"
version('24.5', 'd74b597503a68105e61b5b9f6d065b44')
variant('X', default=True, description="Enable a X toolkit (GTK+)")
variant('gtkplus', default=False,
description="Enable a GTK+ as X toolkit (ignored if ~X)")
depends_on('ncurses')
# Emacs also depends on:
# GTK or other widget library
# libtiff, png, etc.
# For now, we assume the system provides all that stuff.
# For Ubuntu 14.04 LTS:
# sudo apt-get install libgtk-3-dev libxpm-dev libtiff5-dev libjpeg8-dev libgif-dev libpng12-dev
depends_on('libtiff', when='+X')
depends_on('libpng', when='+X')
depends_on('libxpm', when='+X')
depends_on('giflib', when='+X')
depends_on('gtkplus', when='+X+gtkplus')
def install(self, spec, prefix):
configure('--prefix=%s' % prefix)
args = []
if '+X' in spec:
if '+gtkplus' in spec:
toolkit = 'gtk{0}'.format(spec['gtkplus'].version.up_to(1))
else:
toolkit = 'no'
args = [
'--with-x',
'--with-x-toolkit={0}'.format(toolkit)
]
else:
args = ['--without-x']
if '+gtkplus' in spec:
tty.warn('The variant +gtkplus is ignored if ~X is selected.')
configure('--prefix={0}'.format(prefix), *args)
make()
make("install")

11
var/spack/repos/builtin/packages/environment-modules/package.py
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@@ -35,7 +35,7 @@ class EnvironmentModules(Package):
version('3.2.10', '8b097fdcb90c514d7540bb55a3cb90fb')
# Dependencies:
depends_on('tcl')
depends_on('tcl', type=alldeps)
def install(self, spec, prefix):
tcl_spec = spec['tcl']
@@ -46,17 +46,18 @@ def install(self, spec, prefix):
"--without-tclx",
"--with-tclx-ver=0.0",
"--prefix=%s" % prefix,
"--with-tcl=%s" % join_path(tcl_spec.prefix, 'lib'), # It looks for tclConfig.sh
"--with-tcl-ver=%d.%d" % (tcl_spec.version.version[0], tcl_spec.version.version[1]),
# It looks for tclConfig.sh
"--with-tcl=%s" % join_path(tcl_spec.prefix, 'lib'),
"--with-tcl-ver=%d.%d" % (tcl_spec.version.version[
0], tcl_spec.version.version[1]),
'--disable-debug',
'--disable-dependency-tracking',
'--disable-silent-rules',
'--disable-versioning',
'--disable-versioning',
'--datarootdir=%s' % prefix.share,
'CPPFLAGS=%s' % ' '.join(CPPFLAGS)
]
configure(*config_args)
make()
make('install')

26
var/spack/repos/builtin/packages/espresso/package.py
View File

@@ -26,20 +26,28 @@
import os
class Espresso(Package):
"""
QE is an integrated suite of Open-Source computer codes for electronic-structure calculations and materials
modeling at the nanoscale. It is based on density-functional theory, plane waves, and pseudopotentials.
QE is an integrated suite of Open-Source computer codes for
electronic-structure calculations and materials modeling at
the nanoscale. It is based on density-functional theory, plane
waves, and pseudopotentials.
"""
homepage = 'http://quantum-espresso.org'
url = 'http://www.qe-forge.org/gf/download/frsrelease/204/912/espresso-5.3.0.tar.gz'
version(
'5.4.0',
'8bb78181b39bd084ae5cb7a512c1cfe7',
url='http://www.qe-forge.org/gf/download/frsrelease/211/968/espresso-5.4.0.tar.gz'
)
version('5.3.0', '6848fcfaeb118587d6be36bd10b7f2c3')
variant('mpi', default=True, description='Build Quantum-ESPRESSO with mpi support')
variant('mpi', default=True, description='Builds with mpi support')
variant('openmp', default=False, description='Enables openMP support')
variant('scalapack', default=True, description='Enables scalapack support')
variant('elpa', default=True, description='Use elpa as an eigenvalue solver')
variant('elpa', default=True, description='Uses elpa as an eigenvalue solver')
depends_on('blas')
depends_on('lapack')
@@ -47,7 +55,12 @@ class Espresso(Package):
depends_on('mpi', when='+mpi')
depends_on('fftw~mpi', when='~mpi')
depends_on('fftw+mpi', when='+mpi')
depends_on('scalapack', when='+scalapack+mpi') # TODO : + mpi needed to avoid false dependencies installation
# TODO : + mpi needed to avoid false dependencies installation
depends_on('scalapack', when='+scalapack+mpi')
# Spurious problems running in parallel the Makefile
# generated by qe configure
parallel = False
def check_variants(self, spec):
error = 'you cannot ask for \'+{variant}\' when \'+mpi\' is not active'
@@ -87,10 +100,9 @@ def install(self, spec, prefix):
configure(*options)
make('all')
if spec.architecture.startswith('darwin'):
if spec.satisfies('platform=darwin'):
mkdirp(prefix.bin)
for filename in glob("bin/*.x"):
install(filename, prefix.bin)
else:
make('install')

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