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-rw-r--r--var/spack/repos/builtin/packages/boost/boost_11856.patch34
-rw-r--r--var/spack/repos/builtin/packages/boost/package.py114
-rw-r--r--var/spack/repos/builtin/packages/eigen/package.py68
-rw-r--r--var/spack/repos/builtin/packages/elpa/package.py55
-rw-r--r--var/spack/repos/builtin/packages/gcc/package.py6
-rw-r--r--var/spack/repos/builtin/packages/hdf/package.py44
-rw-r--r--var/spack/repos/builtin/packages/hdf5/package.py89
-rw-r--r--var/spack/repos/builtin/packages/mpfr/package.py2
-rw-r--r--var/spack/repos/builtin/packages/mpich/package.py8
-rw-r--r--var/spack/repos/builtin/packages/mumps/Makefile.inc38
-rw-r--r--var/spack/repos/builtin/packages/mumps/package.py139
-rw-r--r--var/spack/repos/builtin/packages/mvapich2/package.py34
-rw-r--r--var/spack/repos/builtin/packages/netlib-scalapack/package.py50
-rw-r--r--var/spack/repos/builtin/packages/openmpi/package.py27
14 files changed, 638 insertions, 70 deletions
diff --git a/var/spack/repos/builtin/packages/boost/boost_11856.patch b/var/spack/repos/builtin/packages/boost/boost_11856.patch
new file mode 100644
index 0000000000..3b4052ca18
--- /dev/null
+++ b/var/spack/repos/builtin/packages/boost/boost_11856.patch
@@ -0,0 +1,34 @@
+--- a/libs/container/src/pool_resource.cpp 2015-11-06 12:49:55.000000000 -0800
++++ b/libs/container/src/pool_resource.cpp 2015-12-22 07:54:36.202131121 -0800
+@@ -32,11 +32,11 @@
+ class pool_data_t
+ : public block_slist_base<>
+ {
+- typedef block_slist_base<> block_slist_base;
++ typedef block_slist_base<> block_slist_base_t;
+
+ public:
+ explicit pool_data_t(std::size_t initial_blocks_per_chunk)
+- : block_slist_base(), next_blocks_per_chunk(initial_blocks_per_chunk)
++ : block_slist_base_t(), next_blocks_per_chunk(initial_blocks_per_chunk)
+ { slist_algo::init_header(&free_slist); }
+
+ void *allocate_block() BOOST_NOEXCEPT
+@@ -59,7 +59,7 @@
+ void release(memory_resource &upstream)
+ {
+ slist_algo::init_header(&free_slist);
+- this->block_slist_base::release(upstream);
++ this->block_slist_base_t::release(upstream);
+ next_blocks_per_chunk = pool_options_minimum_max_blocks_per_chunk;
+ }
+
+@@ -72,7 +72,7 @@
+
+ //Minimum block size is at least max_align, so all pools allocate sizes that are multiple of max_align,
+ //meaning that all blocks are max_align-aligned.
+- char *p = static_cast<char *>(block_slist_base::allocate(blocks_per_chunk*pool_block, mr));
++ char *p = static_cast<char *>(block_slist_base_t::allocate(blocks_per_chunk*pool_block, mr));
+
+ //Create header types. This is no-throw
+ for(std::size_t i = 0, max = blocks_per_chunk; i != max; ++i){
diff --git a/var/spack/repos/builtin/packages/boost/package.py b/var/spack/repos/builtin/packages/boost/package.py
index 3427b74ad6..fb1f5daee7 100644
--- a/var/spack/repos/builtin/packages/boost/package.py
+++ b/var/spack/repos/builtin/packages/boost/package.py
@@ -1,4 +1,5 @@
from spack import *
+import spack
class Boost(Package):
"""Boost provides free peer-reviewed portable C++ source
@@ -44,15 +45,50 @@ class Boost(Package):
version('1.34.1', '2d938467e8a448a2c9763e0a9f8ca7e5')
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'])
+
+ # mpi/python are not installed by default because they pull in many
+ # dependencies and/or because there is a great deal of customization
+ # possible (and it would be difficult to choose sensible defaults)
+ default_noinstall_libs = set(['mpi', 'python'])
+
+ all_libs = default_install_libs | default_noinstall_libs
+
+ for lib in all_libs:
+ variant(lib, default=(lib not in default_noinstall_libs),
+ description="Compile with {0} library".format(lib))
+
variant('debug', default=False, description='Switch to the debug version of Boost')
- variant('python', default=False, description='Activate the component Boost.Python')
- variant('mpi', default=False, description='Activate the component Boost.MPI')
- variant('compression', default=True, description='Activate the compression Boost.iostreams')
+ 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)")
+ depends_on('icu', when='+icu_support')
depends_on('python', when='+python')
depends_on('mpi', when='+mpi')
- depends_on('bzip2', when='+compression')
- depends_on('zlib', when='+compression')
+ depends_on('bzip2', when='+iostreams')
+ depends_on('zlib', when='+iostreams')
+
+ # Patch fix from https://svn.boost.org/trac/boost/ticket/11856
+ 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."""
@@ -77,22 +113,20 @@ class Boost(Package):
# fallback to gcc if no toolset found
return 'gcc'
- def determine_bootstrap_options(self, spec, options):
- options.append('--with-toolset=%s' % self.determine_toolset(spec))
+ def determine_bootstrap_options(self, spec, withLibs, options):
+ boostToolsetId = self.determine_toolset(spec)
+ options.append('--with-toolset=%s' % boostToolsetId)
+ options.append("--with-libraries=%s" % ','.join(withLibs))
- without_libs = []
- if '~mpi' in spec:
- without_libs.append('mpi')
- if '~python' in spec:
- without_libs.append('python')
- else:
+ if '+python' in spec:
options.append('--with-python=%s' %
join_path(spec['python'].prefix.bin, 'python'))
- if without_libs:
- options.append('--without-libraries=%s' % ','.join(without_libs))
-
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))
+
if '+mpi' in spec:
f.write('using mpi : %s ;\n' %
join_path(spec['mpi'].prefix.bin, 'mpicxx'))
@@ -107,12 +141,10 @@ class Boost(Package):
else:
options.append('variant=release')
- if '~compression' in spec:
- options.extend([
- '-s', 'NO_BZIP2=1',
- '-s', 'NO_ZLIB=1'])
+ if '+icu_support' in spec:
+ options.extend(['-s', 'ICU_PATH=%s' % spec['icu'].prefix])
- if '+compression' in spec:
+ if '+iostreams' in spec:
options.extend([
'-s', 'BZIP2_INCLUDE=%s' % spec['bzip2'].prefix.include,
'-s', 'BZIP2_LIBPATH=%s' % spec['bzip2'].prefix.lib,
@@ -120,20 +152,46 @@ class Boost(Package):
'-s', 'ZLIB_LIBPATH=%s' % spec['zlib'].prefix.lib,
])
+ linkTypes = ['static']
+ if '+shared' in spec:
+ linkTypes.append('shared')
+
+ threadingOpts = []
+ if '+multithreaded' in spec:
+ threadingOpts.append('multi')
+ if '+singlethreaded' in spec:
+ threadingOpts.append('single')
+ if not threadingOpts:
+ raise RuntimeError("At least one of {singlethreaded, multithreaded} must be enabled")
+
options.extend([
'toolset=%s' % self.determine_toolset(spec),
- 'link=static,shared',
- 'threading=single,multi',
+ 'link=%s' % ','.join(linkTypes),
'--layout=tagged'])
+
+ return threadingOpts
def install(self, spec, prefix):
+ withLibs = list()
+ for lib in Boost.all_libs:
+ if "+{0}".format(lib) in spec:
+ 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.
+ src = join_path(self.stage.source_path, 'boost')
+ mkdirp(join_path(prefix, 'include'))
+ dst = join_path(prefix, 'include', 'boost')
+ install_tree(src, dst)
+ return
+
# to make Boost find the user-config.jam
env['BOOST_BUILD_PATH'] = './'
bootstrap = Executable('./bootstrap.sh')
bootstrap_options = ['--prefix=%s' % prefix]
- self.determine_bootstrap_options(spec, bootstrap_options)
+ self.determine_bootstrap_options(spec, withLibs, bootstrap_options)
bootstrap(*bootstrap_options)
@@ -143,6 +201,10 @@ class Boost(Package):
b2 = Executable(b2name)
b2_options = ['-j', '%s' % make_jobs]
- self.determine_b2_options(spec, b2_options)
+ threadingOpts = self.determine_b2_options(spec, b2_options)
- b2('install', *b2_options)
+ # In theory it could be done on one call but it fails on
+ # Boost.MPI if the threading options are not separated.
+ for threadingOpt in threadingOpts:
+ b2('install', 'threading=%s' % threadingOpt, *b2_options)
+
diff --git a/var/spack/repos/builtin/packages/eigen/package.py b/var/spack/repos/builtin/packages/eigen/package.py
new file mode 100644
index 0000000000..44ee6819f5
--- /dev/null
+++ b/var/spack/repos/builtin/packages/eigen/package.py
@@ -0,0 +1,68 @@
+##############################################################################
+# Copyright (c) 2013, Lawrence Livermore National Security, LLC.
+# Produced at the Lawrence Livermore National Laboratory.
+#
+# This file is part of Spack.
+# Written by David Beckingsale, david@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 General Public License (as published by
+# the Free Software Foundation) version 2.1 dated 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 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 Eigen(Package):
+ """
+ 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')
+
+ 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')
+
+ # TODO : dependency on SuiteSparse, googlehash, superlu, adolc missing
+
+ depends_on('metis', when='+metis')
+ depends_on('scotch', when='+scotch')
+ depends_on('fftw', when='+fftw')
+
+ depends_on('mpfr@2.3.0:') # Eigen 3.2.7 requires at least 2.3.0
+ depends_on('gmp')
+
+ def install(self, spec, prefix):
+
+ options = []
+ options.extend(std_cmake_args)
+
+ build_directory = join_path(self.stage.path, 'spack-build')
+ source_directory = self.stage.source_path
+
+ if '+debug' in spec:
+ options.append('-DCMAKE_BUILD_TYPE:STRING=Debug')
+
+ with working_dir(build_directory, create=True):
+ cmake(source_directory, *options)
+ make()
+ make("install")
diff --git a/var/spack/repos/builtin/packages/elpa/package.py b/var/spack/repos/builtin/packages/elpa/package.py
new file mode 100644
index 0000000000..2ade5b0b37
--- /dev/null
+++ b/var/spack/repos/builtin/packages/elpa/package.py
@@ -0,0 +1,55 @@
+##############################################################################
+# Copyright (c) 2013, Lawrence Livermore National Security, LLC.
+# Produced at the Lawrence Livermore National Laboratory.
+#
+# This file is part of Spack.
+# Written 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 General Public License (as published by
+# the Free Software Foundation) version 2.1 dated 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 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 Elpa(Package):
+ """
+ Eigenvalue solvers for Petaflop-Applications (ELPA)
+ """
+
+ 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')
+
+ variant('openmp', default=False, description='Activates OpenMP support')
+
+ depends_on('mpi')
+ depends_on('blas')
+ depends_on('lapack')
+ depends_on('scalapack')
+
+ def install(self, spec, prefix):
+
+ options = ["--prefix=%s" % prefix]
+
+ if '+openmp' in spec:
+ options.append("--enable-openmp")
+
+ configure(*options)
+ make()
+ make("install")
diff --git a/var/spack/repos/builtin/packages/gcc/package.py b/var/spack/repos/builtin/packages/gcc/package.py
index 61b16f3fd8..3e5895cfb8 100644
--- a/var/spack/repos/builtin/packages/gcc/package.py
+++ b/var/spack/repos/builtin/packages/gcc/package.py
@@ -50,7 +50,7 @@ class Gcc(Package):
version('4.5.4', '27e459c2566b8209ab064570e1b378f7')
variant('gold', default=True, description="Build the gold linker plugin for ld-based LTO")
-
+
depends_on("mpfr")
depends_on("gmp")
depends_on("mpc") # when @4.5:
@@ -102,7 +102,7 @@ class Gcc(Package):
configure(*options)
make()
make("install")
-
+
self.write_rpath_specs()
@@ -121,7 +121,7 @@ class Gcc(Package):
return
gcc = Executable(join_path(self.prefix.bin, 'gcc'))
- lines = gcc('-dumpspecs', return_output=True).strip().split("\n")
+ lines = gcc('-dumpspecs', output=str).strip().split("\n")
specs_file = join_path(self.spec_dir, 'specs')
with closing(open(specs_file, 'w')) as out:
for line in lines:
diff --git a/var/spack/repos/builtin/packages/hdf/package.py b/var/spack/repos/builtin/packages/hdf/package.py
new file mode 100644
index 0000000000..1ecb167183
--- /dev/null
+++ b/var/spack/repos/builtin/packages/hdf/package.py
@@ -0,0 +1,44 @@
+from spack import *
+
+class Hdf(Package):
+ """HDF4 (also known as HDF) is a library and multi-object
+ file format for storing and managing data between machines."""
+
+ homepage = "https://www.hdfgroup.org/products/hdf4/"
+ url = "https://www.hdfgroup.org/ftp/HDF/releases/HDF4.2.11/src/hdf-4.2.11.tar.gz"
+ list_url = "https://www.hdfgroup.org/ftp/HDF/releases/"
+ list_depth = 3
+
+ version('4.2.11', '063f9928f3a19cc21367b71c3b8bbf19')
+
+ variant('szip', default=False, description="Enable szip support")
+
+ depends_on("jpeg")
+ depends_on("szip", when='+szip')
+ depends_on("zlib")
+
+
+ def url_for_version(self, version):
+ return "https://www.hdfgroup.org/ftp/HDF/releases/HDF" + str(version) + "/src/hdf-" + str(version) + ".tar.gz"
+
+
+ def install(self, spec, prefix):
+ config_args = [
+ '--prefix=%s' % prefix,
+ '--with-jpeg=%s' % spec['jpeg'].prefix,
+ '--with-zlib=%s' % spec['zlib'].prefix,
+ '--disable-netcdf',
+ '--enable-fortran',
+ '--disable-shared',
+ '--enable-static',
+ '--enable-production'
+ ]
+
+ # SZip support
+ if '+szip' in spec:
+ config_args.append('--with-szlib=%s' % spec['szip'].prefix)
+
+ configure(*config_args)
+
+ make()
+ make("install")
diff --git a/var/spack/repos/builtin/packages/hdf5/package.py b/var/spack/repos/builtin/packages/hdf5/package.py
index 9a40164341..5321a191f0 100644
--- a/var/spack/repos/builtin/packages/hdf5/package.py
+++ b/var/spack/repos/builtin/packages/hdf5/package.py
@@ -1,5 +1,31 @@
+##############################################################################
+# Copyright (c) 2013, Lawrence Livermore National Security, LLC.
+# Produced at the Lawrence Livermore National Laboratory.
+#
+# This file is part of Spack.
+# Written 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 General Public License (as published by
+# the Free Software Foundation) version 2.1 dated 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 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 Hdf5(Package):
"""HDF5 is a data model, library, and file format for storing and managing
data. It supports an unlimited variety of datatypes, and is designed for
@@ -7,7 +33,7 @@ class Hdf5(Package):
"""
homepage = "http://www.hdfgroup.org/HDF5/"
- url = "http://www.hdfgroup.org/ftp/HDF5/releases/hdf5-1.8.13/src/hdf5-1.8.13.tar.gz"
+ url = "http://www.hdfgroup.org/ftp/HDF5/releases/hdf5-1.8.13/src/hdf5-1.8.13.tar.gz"
list_url = "http://www.hdfgroup.org/ftp/HDF5/releases"
list_depth = 3
@@ -15,26 +41,55 @@ class Hdf5(Package):
version('1.8.15', '03cccb5b33dbe975fdcd8ae9dc021f24')
version('1.8.13', 'c03426e9e77d7766944654280b467289')
+ variant('debug', default=False, description='Builds a debug version of the library')
+
variant('cxx', default=True, description='Enable C++ support')
variant('fortran', default=True, description='Enable Fortran support')
+ variant('unsupported', default=False, description='Enables unsupported configuration options')
+
variant('mpi', default=False, description='Enable MPI support')
- variant('threadsafe', default=False, description='Enable multithreading')
+ variant('szip', default=False, description='Enable szip support')
+ variant('threadsafe', default=False, description='Enable thread-safe capabilities')
depends_on("mpi", when='+mpi')
+ depends_on("szip", when='+szip')
depends_on("zlib")
- # TODO: currently hard-coded to use OpenMPI
+ def validate(self, spec):
+ """
+ Checks if incompatible variants have been activated at the same time
+
+ :param spec: spec of the package
+ :raises RuntimeError: in case of inconsistencies
+ """
+ if '+fortran' in spec and not self.compiler.fc:
+ msg = 'cannot build a fortran variant without a fortran compiler'
+ raise RuntimeError(msg)
+
+ if '+threadsafe' in spec and ('+cxx' in spec or '+fortran' in spec):
+ raise RuntimeError("cannot use variant +threadsafe with either +cxx or +fortran")
+
def install(self, spec, prefix):
+ self.validate(spec)
+ # Handle compilation after spec validation
extra_args = []
+ if '+debug' in spec:
+ extra_args.append('--enable-debug=all')
+ else:
+ extra_args.append('--enable-production')
+
+ if '+unsupported' in spec:
+ extra_args.append("--enable-unsupported")
+
if '+cxx' in spec:
- extra_args.extend([
- '--enable-cxx'
- ])
+ extra_args.append('--enable-cxx')
+
if '+fortran' in spec:
extra_args.extend([
'--enable-fortran',
'--enable-fortran2003'
])
+
if '+mpi' in spec:
# The HDF5 configure script warns if cxx and mpi are enabled
# together. There doesn't seem to be a real reason for this, except
@@ -43,27 +98,29 @@ class Hdf5(Package):
# this is not actually a problem.
extra_args.extend([
"--enable-parallel",
- "--enable-unsupported",
"CC=%s" % spec['mpi'].prefix.bin + "/mpicc",
- "CXX=%s" % spec['mpi'].prefix.bin + "/mpic++",
- "FC=%s" % spec['mpi'].prefix.bin + "/mpifort",
])
- if '+threads' in spec:
- if '+cxx' in spec or '+fortran' in spec:
- die("Cannot use variant +threads with either +cxx or +fortran")
+
+ if '+cxx' in spec:
+ extra_args.append("CXX=%s" % spec['mpi'].prefix.bin + "/mpic++")
+
+ if '+fortran' in spec:
+ extra_args.append("FC=%s" % spec['mpi'].prefix.bin + "/mpifort")
+
+ if '+szip' in spec:
+ extra_args.append("--with-szlib=%s" % spec['szip'].prefix)
+
+ if '+threadsafe' in spec:
extra_args.extend([
'--enable-threadsafe',
'--disable-hl',
- 'CPPFLAGS=-DHDatexit=""',
- 'CFLAGS=-DHDatexit=""'
])
configure(
"--prefix=%s" % prefix,
"--with-zlib=%s" % spec['zlib'].prefix,
- "--enable-shared",
+ "--enable-shared", # TODO : this should be enabled by default, remove it?
*extra_args)
-
make()
make("install")
diff --git a/var/spack/repos/builtin/packages/mpfr/package.py b/var/spack/repos/builtin/packages/mpfr/package.py
index 2758b0da2e..a1bd7529cf 100644
--- a/var/spack/repos/builtin/packages/mpfr/package.py
+++ b/var/spack/repos/builtin/packages/mpfr/package.py
@@ -33,7 +33,7 @@ class Mpfr(Package):
version('3.1.3', '5fdfa3cfa5c86514ee4a241a1affa138')
version('3.1.2', 'ee2c3ac63bf0c2359bf08fc3ee094c19')
- depends_on('gmp@4.1.0:')
+ depends_on('gmp')
def install(self, spec, prefix):
configure("--prefix=%s" % prefix)
diff --git a/var/spack/repos/builtin/packages/mpich/package.py b/var/spack/repos/builtin/packages/mpich/package.py
index 00b7dfda75..c856cfe277 100644
--- a/var/spack/repos/builtin/packages/mpich/package.py
+++ b/var/spack/repos/builtin/packages/mpich/package.py
@@ -41,6 +41,8 @@ class Mpich(Package):
version('3.1', '5643dd176499bfb7d25079aaff25f2ec')
version('3.0.4', '9c5d5d4fe1e17dd12153f40bc5b6dbc0')
+ variant('verbs', default=False, description='Build support for OpenFabrics verbs.')
+
provides('mpi@:3.0', when='@3:')
provides('mpi@:1.3', when='@1:')
@@ -56,6 +58,12 @@ class Mpich(Package):
config_args = ["--prefix=" + prefix,
"--enable-shared"]
+ # Variants
+ if '+verbs' in spec:
+ config_args.append("--with-ibverbs")
+ else:
+ config_args.append("--without-ibverbs")
+
# TODO: Spack should make it so that you can't actually find
# these compilers if they're "disabled" for the current
# compiler configuration.
diff --git a/var/spack/repos/builtin/packages/mumps/Makefile.inc b/var/spack/repos/builtin/packages/mumps/Makefile.inc
new file mode 100644
index 0000000000..2e6a041878
--- /dev/null
+++ b/var/spack/repos/builtin/packages/mumps/Makefile.inc
@@ -0,0 +1,38 @@
+LPORDDIR = $(topdir)/PORD/lib/
+IPORD = -I$(topdir)/PORD/include/
+LPORD = -L$(LPORDDIR) -lpord
+
+ORDERINGSC = $(ORDERINGSF)
+LORDERINGS = $(LMETIS) $(LPORD) $(LSCOTCH)
+IORDERINGSF = $(ISCOTCH)
+IORDERINGSC = $(IMETIS) $(IPORD) $(ISCOTCH)
+
+PLAT =
+LIBEXT = .a
+OUTC = -o
+OUTF = -o
+RM = /bin/rm -f
+AR = ar vr
+RANLIB = ranlib
+
+INCSEQ = -I$(topdir)/libseq
+LIBSEQ = -L$(topdir)/libseq -lmpiseq
+
+INCPAR =
+LIBPAR = $(SCALAP)
+
+LIBOTHERS = -lpthread
+
+#Sequential:
+ifeq ($(MUMPS_TYPE),seq)
+INCS = $(INCSEQ)
+LIBS = $(LIBSEQ)
+LIBSEQNEEDED = libseqneeded
+endif
+
+#Parallel:
+ifeq ($(MUMPS_TYPE),par)
+INCS = $(INCPAR)
+LIBS = $(LIBPAR)
+LIBSEQNEEDED =
+endif
diff --git a/var/spack/repos/builtin/packages/mumps/package.py b/var/spack/repos/builtin/packages/mumps/package.py
new file mode 100644
index 0000000000..44a37903cc
--- /dev/null
+++ b/var/spack/repos/builtin/packages/mumps/package.py
@@ -0,0 +1,139 @@
+from spack import *
+import os
+
+
+class Mumps(Package):
+ """MUMPS: a MUltifrontal Massively Parallel sparse direct Solver"""
+
+ homepage = "http://mumps.enseeiht.fr"
+ url = "http://mumps.enseeiht.fr/MUMPS_5.0.1.tar.gz"
+
+ version('5.0.1', 'b477573fdcc87babe861f62316833db0')
+
+ variant('mpi', default=True, description='Activate the compilation of MUMPS with the MPI support')
+ variant('scotch', default=False, description='Activate Scotch as a possible ordering library')
+ variant('ptscotch', default=False, description='Activate PT-Scotch as a possible ordering library')
+ variant('metis', default=False, description='Activate Metis as a possible ordering library')
+ variant('parmetis', default=False, description='Activate Parmetis as a possible ordering library')
+ variant('double', default=True, description='Activate the compilation of dmumps')
+ variant('float', default=True, description='Activate the compilation of smumps')
+ variant('complex', default=True, description='Activate the compilation of cmumps and/or zmumps')
+ variant('idx64', default=False, description='Use int64_t/integer*8 as default index type')
+
+
+ depends_on('scotch + esmumps', when='~ptscotch+scotch')
+ depends_on('scotch + esmumps + mpi', when='+ptscotch')
+ depends_on('metis', when='~parmetis+metis')
+ depends_on('parmetis', when="+parmetis")
+ depends_on('blas')
+ depends_on('lapack')
+ depends_on('scalapack', when='+mpi')
+ depends_on('mpi', when='+mpi')
+
+ # this function is not a patch function because in case scalapack
+ # is needed it uses self.spec['scalapack'].fc_link set by the
+ # setup_dependent_environment in scalapck. This happen after patch
+ # end before install
+ # def patch(self):
+ def write_makefile_inc(self):
+ if ('+parmetis' in self.spec or '+ptscotch' in self.spec) and '+mpi' not in self.spec:
+ raise RuntimeError('You cannot use the variants parmetis or ptscotch without mpi')
+
+ makefile_conf = ["LIBBLAS = -L%s -lblas" % self.spec['blas'].prefix.lib]
+
+ orderings = ['-Dpord']
+
+ if '+ptscotch' in self.spec or '+scotch' in self.spec:
+ join_lib = ' -l%s' % ('pt' if '+ptscotch' in self.spec else '')
+ makefile_conf.extend(
+ ["ISCOTCH = -I%s" % self.spec['scotch'].prefix.include,
+ "LSCOTCH = -L%s %s%s" % (self.spec['scotch'].prefix.lib,
+ join_lib,
+ join_lib.join(['esmumps', 'scotch', 'scotcherr']))])
+ orderings.append('-Dscotch')
+ if '+ptscotch' in self.spec:
+ orderings.append('-Dptscotch')
+
+ if '+parmetis' in self.spec or '+metis' in self.spec:
+ libname = 'parmetis' if '+parmetis' in self.spec else 'metis'
+ makefile_conf.extend(
+ ["IMETIS = -I%s" % self.spec[libname].prefix.include,
+ "LMETIS = -L%s -l%s" % (self.spec[libname].prefix.lib, libname)])
+
+ orderings.append('-Dmetis')
+ if '+parmetis' in self.spec:
+ orderings.append('-Dparmetis')
+
+ makefile_conf.append("ORDERINGSF = %s" % (' '.join(orderings)))
+
+ # TODO: test this part, it needs a full blas, scalapack and
+ # partitionning environment with 64bit integers
+ if '+idx64' in self.spec:
+ makefile_conf.extend(
+ # the fortran compilation flags most probably are
+ # working only for intel and gnu compilers this is
+ # perhaps something the compiler should provide
+ ['OPTF = -O -DALLOW_NON_INIT %s' % '-fdefault-integer-8' if self.compiler.name == "gcc" else '-i8',
+ 'OPTL = -O ',
+ 'OPTC = -O -DINTSIZE64'])
+ else:
+ makefile_conf.extend(
+ ['OPTF = -O -DALLOW_NON_INIT',
+ 'OPTL = -O ',
+ 'OPTC = -O '])
+
+
+ if '+mpi' in self.spec:
+ makefile_conf.extend(
+ ["CC = %s" % join_path(self.spec['mpi'].prefix.bin, 'mpicc'),
+ "FC = %s" % join_path(self.spec['mpi'].prefix.bin, 'mpif90'),
+ "FL = %s" % join_path(self.spec['mpi'].prefix.bin, 'mpif90'),
+ "SCALAP = %s" % self.spec['scalapack'].fc_link,
+ "MUMPS_TYPE = par"])
+ else:
+ makefile_conf.extend(
+ ["CC = cc",
+ "FC = fc",
+ "FL = fc",
+ "MUMPS_TYPE = seq"])
+
+ # TODO: change the value to the correct one according to the
+ # compiler possible values are -DAdd_, -DAdd__ and/or -DUPPER
+ makefile_conf.append("CDEFS = -DAdd_")
+
+
+ makefile_inc_template = join_path(os.path.dirname(self.module.__file__),
+ 'Makefile.inc')
+ with open(makefile_inc_template, "r") as fh:
+ makefile_conf.extend(fh.read().split('\n'))
+
+ with working_dir('.'):
+ with open("Makefile.inc", "w") as fh:
+ makefile_inc = '\n'.join(makefile_conf)
+ fh.write(makefile_inc)
+
+
+
+ def install(self, spec, prefix):
+ make_libs = []
+
+ # the coice to compile ?examples is to have kind of a sanity
+ # check on the libraries generated.
+ if '+float' in spec:
+ make_libs.append('sexamples')
+ if '+complex' in spec:
+ make_libs.append('cexamples')
+
+ if '+double' in spec:
+ make_libs.append('dexamples')
+ if '+complex' in spec:
+ make_libs.append('zexamples')
+
+ self.write_makefile_inc()
+
+ make(*make_libs)
+
+ install_tree('lib', prefix.lib)
+ install_tree('include', prefix.include)
+ if '~mpi' in spec:
+ install('libseq/libmpiseq.a', prefix.lib)
diff --git a/var/spack/repos/builtin/packages/mvapich2/package.py b/var/spack/repos/builtin/packages/mvapich2/package.py
index 23a11b3171..af5ed1b088 100644
--- a/var/spack/repos/builtin/packages/mvapich2/package.py
+++ b/var/spack/repos/builtin/packages/mvapich2/package.py
@@ -4,15 +4,13 @@ import os
class Mvapich2(Package):
"""MVAPICH2 is an MPI implementation for Infiniband networks."""
homepage = "http://mvapich.cse.ohio-state.edu/"
+ url = "http://mvapich.cse.ohio-state.edu/download/mvapich/mv2/mvapich2-2.2b.tar.gz"
- version('2.2a', 'b8ceb4fc5f5a97add9b3ff1b9cbe39d2',
- url='http://mvapich.cse.ohio-state.edu/download/mvapich/mv2/mvapich2-2.2a.tar.gz')
+ version('2.2b', '5651e8b7a72d7c77ca68da48f3a5d108')
+ version('2.2a', 'b8ceb4fc5f5a97add9b3ff1b9cbe39d2')
+ version('2.0', '9fbb68a4111a8b6338e476dc657388b4')
+ version('1.9', '5dc58ed08fd3142c260b70fe297e127c')
- version('2.0', '9fbb68a4111a8b6338e476dc657388b4',
- url='http://mvapich.cse.ohio-state.edu/download/mvapich/mv2/mvapich2-2.0.tar.gz')
-
- version('1.9', '5dc58ed08fd3142c260b70fe297e127c',
- url="http://mvapich.cse.ohio-state.edu/download/mvapich2/mv2/mvapich2-1.9.tgz")
patch('ad_lustre_rwcontig_open_source.patch', when='@1.9')
provides('mpi@:2.2', when='@1.9') # MVAPICH2-1.9 supports MPI 2.2
@@ -41,16 +39,25 @@ class Mvapich2(Package):
NEMESISIBTCP = 'nemesisibtcp'
NEMESISIB = 'nemesisib'
NEMESIS = 'nemesis'
+ MRAIL = 'mrail'
SUPPORTED_NETWORKS = (PSM, SOCK, NEMESIS, NEMESISIB, NEMESISIBTCP)
variant(PSM, default=False, description='Configures a build for QLogic PSM-CH3')
variant(SOCK, default=False, description='Configures a build for TCP/IP-CH3')
variant(NEMESISIBTCP, default=False, description='Configures a build for both OFA-IB-Nemesis and TCP/IP-Nemesis')
variant(NEMESISIB, default=False, description='Configures a build for OFA-IB-Nemesis')
variant(NEMESIS, default=False, description='Configures a build for TCP/IP-Nemesis')
+ variant(MRAIL, default=False, description='Configures a build for OFA-IB-CH3')
##########
# FIXME : CUDA support is missing
+ def url_for_version(self, version):
+ base_url = "http://mvapich.cse.ohio-state.edu/download"
+ if version < Version('2.0'):
+ return "%s/mvapich2/mv2/mvapich2-%s.tar.gz" % (base_url, version)
+ else:
+ return "%s/mvapich/mv2/mvapich2-%s.tar.gz" % (base_url, version)
+
@staticmethod
def enabled(x):
"""
@@ -117,7 +124,7 @@ class Mvapich2(Package):
if count > 1:
raise RuntimeError('network variants are mutually exclusive (only one can be selected at a time)')
- # From here on I can suppose that ony one variant has been selected
+ # From here on I can suppose that only one variant has been selected
if self.enabled(Mvapich2.PSM) in spec:
network_options = ["--with-device=ch3:psm"]
elif self.enabled(Mvapich2.SOCK) in spec:
@@ -128,7 +135,7 @@ class Mvapich2(Package):
network_options = ["--with-device=ch3:nemesis:ib"]
elif self.enabled(Mvapich2.NEMESIS) in spec:
network_options = ["--with-device=ch3:nemesis"]
- else:
+ elif self.enabled(Mvapich2.MRAIL) in spec:
network_options = ["--with-device=ch3:mrail", "--with-rdma=gen2"]
configure_args.extend(network_options)
@@ -141,7 +148,14 @@ class Mvapich2(Package):
"--enable-romio",
"--disable-silent-rules",
]
- if not self.compiler.f77 and not self.compiler.fc:
+
+ if self.compiler.f77 and self.compiler.fc:
+ configure_args.append("--enable-fortran=all")
+ elif self.compiler.f77:
+ configure_args.append("--enable-fortran=f77")
+ elif self.compiler.fc:
+ configure_args.append("--enable-fortran=fc")
+ else:
configure_args.append("--enable-fortran=none")
# Set the type of the build (debug, release)
diff --git a/var/spack/repos/builtin/packages/netlib-scalapack/package.py b/var/spack/repos/builtin/packages/netlib-scalapack/package.py
new file mode 100644
index 0000000000..5be91c4a40
--- /dev/null
+++ b/var/spack/repos/builtin/packages/netlib-scalapack/package.py
@@ -0,0 +1,50 @@
+from spack import *
+
+class NetlibScalapack(Package):
+ """ScaLAPACK is a library of high-performance linear algebra routines for parallel distributed memory machines"""
+
+ homepage = "http://www.netlib.org/scalapack/"
+ url = "http://www.netlib.org/scalapack/scalapack-2.0.2.tgz"
+
+ version('2.0.2', '2f75e600a2ba155ed9ce974a1c4b536f')
+ version('2.0.1', '17b8cde589ea0423afe1ec43e7499161')
+ version('2.0.0', '9e76ae7b291be27faaad47cfc256cbfe')
+ # versions before 2.0.0 are not using cmake and requires blacs as
+ # a separated package
+
+ variant('shared', default=True, description='Build the shared library version')
+ variant('fpic', default=False, description="Build with -fpic compiler option")
+
+ provides('scalapack')
+
+ depends_on('mpi')
+ depends_on('lapack')
+
+ def install(self, spec, prefix):
+ options = [
+ "-DBUILD_SHARED_LIBS:BOOL=%s" % 'ON' if '+shared' in spec else 'OFF',
+ "-DBUILD_STATIC_LIBS:BOOL=%s" % 'OFF' if '+shared' in spec else 'ON',
+ "-DUSE_OPTIMIZED_LAPACK_BLAS:BOOL=ON", # forces scalapack to use find_package(LAPACK)
+ ]
+
+ if '+fpic' in spec:
+ options.extend([
+ "-DCMAKE_C_FLAGS=-fPIC",
+ "-DCMAKE_Fortran_FLAGS=-fPIC"
+ ])
+
+ options.extend(std_cmake_args)
+
+ with working_dir('spack-build', create=True):
+ cmake('..', *options)
+ make()
+ make("install")
+
+ def setup_dependent_environment(self, module, spec, dependent_spec):
+ # TODO treat OS that are not Linux...
+ lib_suffix = '.so' if '+shared' in spec['scalapack'] else '.a'
+
+ spec['scalapack'].fc_link = '-L%s -lscalapack' % spec['scalapack'].prefix.lib
+ spec['scalapack'].cc_link = spec['scalapack'].fc_link
+ spec['scalapack'].libraries = [join_path(spec['scalapack'].prefix.lib,
+ 'libscalapack%s' % lib_suffix)]
diff --git a/var/spack/repos/builtin/packages/openmpi/package.py b/var/spack/repos/builtin/packages/openmpi/package.py
index 463719f9db..e4484af8c5 100644
--- a/var/spack/repos/builtin/packages/openmpi/package.py
+++ b/var/spack/repos/builtin/packages/openmpi/package.py
@@ -17,45 +17,47 @@ class Openmpi(Package):
list_url = "http://www.open-mpi.org/software/ompi/"
list_depth = 3
+ version('1.10.2', 'b2f43d9635d2d52826e5ef9feb97fd4c')
version('1.10.1', 'f0fcd77ed345b7eafb431968124ba16e')
version('1.10.0', '280cf952de68369cebaca886c5ce0304')
- version('1.8.8', '0dab8e602372da1425e9242ae37faf8c')
- version('1.6.5', '03aed2a4aa4d0b27196962a2a65fc475')
+ version('1.8.8', '0dab8e602372da1425e9242ae37faf8c')
+ version('1.6.5', '03aed2a4aa4d0b27196962a2a65fc475')
patch('ad_lustre_rwcontig_open_source.patch', when="@1.6.5")
patch('llnl-platforms.patch', when="@1.6.5")
- patch('configure.patch', when="@1.10.0:")
+ patch('configure.patch', when="@1.10.0:1.10.1")
- variant('psm', default=False, description='Build support for the PSM library.')
+ variant('psm', default=False, description='Build support for the PSM library.')
variant('verbs', default=False, description='Build support for OpenFabrics verbs.')
+ # TODO : variant support for other schedulers is missing
+ variant('tm', default=False, description='Build TM (Torque, PBSPro, and compatible) support')
+
provides('mpi@:2.2', when='@1.6.5')
provides('mpi@:3.0', when='@1.7.5:')
-
depends_on('hwloc')
-
def url_for_version(self, version):
return "http://www.open-mpi.org/software/ompi/v%s/downloads/openmpi-%s.tar.bz2" % (version.up_to(2), version)
-
def setup_dependent_environment(self, module, spec, dep_spec):
"""For dependencies, make mpicc's use spack wrapper."""
- os.environ['OMPI_CC'] = 'cc'
+ os.environ['OMPI_CC'] = 'cc'
os.environ['OMPI_CXX'] = 'c++'
os.environ['OMPI_FC'] = 'f90'
os.environ['OMPI_F77'] = 'f77'
-
def install(self, spec, prefix):
config_args = ["--prefix=%s" % prefix,
"--with-hwloc=%s" % spec['hwloc'].prefix,
- "--with-tm", # necessary for Torque support
"--enable-shared",
"--enable-static"]
# Variants
+ if '+tm' in spec:
+ config_args.append("--with-tm") # necessary for Torque support
+
if '+psm' in spec:
config_args.append("--with-psm")
@@ -85,7 +87,6 @@ class Openmpi(Package):
self.filter_compilers()
-
def filter_compilers(self):
"""Run after install to make the MPI compilers use the
compilers that Spack built the package with.
@@ -94,7 +95,7 @@ class Openmpi(Package):
to Spack's generic cc, c++ and f90. We want them to
be bound to whatever compiler they were built with.
"""
- kwargs = { 'ignore_absent' : True, 'backup' : False, 'string' : False }
+ kwargs = {'ignore_absent': True, 'backup': False, 'string': False}
dir = os.path.join(self.prefix, 'share/openmpi/')
cc_wrappers = ['mpicc-vt-wrapper-data.txt', 'mpicc-wrapper-data.txt',
@@ -132,5 +133,3 @@ class Openmpi(Package):
if not os.path.islink(path):
filter_file('compiler=.*', 'compiler=%s' % self.compiler.fc,
path, **kwargs)
-
-
generated by cgit v1.2.3-60-g2f50 (git 2.42.0) at 2024-07-11 23:13:30 +0000