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#!/usr/bin/env python
# Author: Lisandro Dalcin
# Contact: dalcinl@gmail.com
"""
MPI for Python
==============
This package provides Python bindings for the **Message Passing
Interface** (MPI) standard. It is implemented on top of the
MPI-1/MPI-2 specification and exposes an API which grounds on the
standard MPI-2 C++ bindings.
This package supports:
+ Convenient communication of any *picklable* Python object
- point-to-point (send & receive)
- collective (broadcast, scatter & gather, reduction)
+ Fast communication of Python object exposing the *Python buffer
interface* (NumPy arrays, builtin bytes/string/array objects)
- point-to-point (blocking/nonbloking/persistent send & receive)
- collective (broadcast, block/vector scatter & gather, reduction)
+ Process groups and communication domains
- Creation of new intra/inter communicators
- Cartesian & graph topologies
+ Parallel input/output:
- read & write
- blocking/nonbloking & collective/noncollective
- individual/shared file pointers & explicit offset
+ Dynamic process management
- spawn & spawn multiple
- accept/connect
- name publishing & lookup
+ One-sided operations (put, get, accumulate)
You can install the `in-development version
<hg+http://code.google.com/p/mpi4py#egg=mpi4py-dev>`_
of mpi4py with::
$ pip install mpi4py==dev
or::
$ easy_install mpi4py==dev
"""
## try:
## import setuptools
## except ImportError:
## pass
import sys, os
# --------------------------------------------------------------------
# Metadata
# --------------------------------------------------------------------
def name():
return 'mpi4py'
def version():
import re
fh = open(os.path.join('src', '__init__.py'))
try: data = fh.read()
finally: fh.close()
m = re.search(r"__version__\s*=\s*'(.*)'", data)
return m.groups()[0]
name = name()
version = version()
url = 'http://%(name)s.googlecode.com/' % vars()
download = url + 'files/%(name)s-%(version)s.tar.gz' % vars()
description = __doc__.split('\n')[1:-1]; del description[1:3]
classifiers = """
Development Status :: 5 - Production/Stable
Intended Audience :: Developers
Intended Audience :: Science/Research
License :: OSI Approved :: BSD License
Operating System :: MacOS :: MacOS X
Operating System :: Microsoft :: Windows
Operating System :: POSIX
Operating System :: POSIX :: Linux
Operating System :: POSIX :: SunOS/Solaris
Operating System :: Unix
Programming Language :: C
Programming Language :: Cython
Programming Language :: Python
Programming Language :: Python :: 2
Programming Language :: Python :: 3
Topic :: Scientific/Engineering
Topic :: Software Development :: Libraries :: Python Modules
Topic :: System :: Distributed Computing
"""
keywords = """
scientific computing
parallel computing
message passing
MPI
"""
platforms = """
Mac OS X
Linux
Solaris
Unix
Windows
"""
metadata = {
'name' : name,
'version' : version,
'description' : description.pop(0),
'long_description' : '\n'.join(description),
'url' : url,
'download_url' : download,
'classifiers' : [c for c in classifiers.split('\n') if c],
'keywords' : [k for k in keywords.split('\n') if k],
'platforms' : [p for p in platforms.split('\n') if p],
'license' : 'BSD',
'author' : 'Lisandro Dalcin',
'author_email' : 'dalcinl@gmail.com',
'maintainer' : 'Lisandro Dalcin',
'maintainer_email' : 'dalcinl@gmail.com',
}
metadata['requires'] = ['pickle',]
metadata['provides'] = ['mpi4py',
'mpi4py.dl',
'mpi4py.rc',
'mpi4py.MPI',
'mpi4py.MPE',
]
# --------------------------------------------------------------------
# Extension modules
# --------------------------------------------------------------------
linux = sys.platform.startswith('linux')
solaris = sys.platform.startswith('sunos')
darwin = sys.platform.startswith('darwin')
if linux:
def whole_archive(name):
return ['-Wl,-whole-archive',
'-l%s' % name,
'-Wl,-no-whole-archive',
]
elif darwin:
def whole_archive(name):
return [#'-Wl,-force_load',
'-l%s' % name,
]
elif solaris:
def whole_archive(name):
return ['-Wl,-zallextract',
'-l%s' % name,
'-Wl,-zdefaultextract',
]
else:
def whole_archive(name):
return ['-l%s' % name]
def configure_mpi(ext, config_cmd):
from textwrap import dedent
from distutils import log
from distutils.errors import DistutilsPlatformError
#
log.info("checking for MPI compile and link ...")
errmsg = ("Cannot find 'mpi.h' header. "
"Check your configuration!!!")
ok = config_cmd.check_header("mpi.h", headers=["stdlib.h"])
if not ok: raise DistutilsPlatformError(errmsg)
headers = ["stdlib.h", "mpi.h"]
ConfigTest = dedent("""\
int main(int argc, char **argv)
{
(void)MPI_Init(&argc, &argv);
(void)MPI_Finalize();
return 0;
}
""")
errmsg = ("Cannot %s MPI programs. "
"Check your configuration!!!")
ok = config_cmd.try_compile(ConfigTest, headers=headers)
if not ok: raise DistutilsPlatformError(errmsg % "compile")
ok = config_cmd.try_link(ConfigTest, headers=headers)
if not ok: raise DistutilsPlatformError(errmsg % "link")
#
log.info("checking for missing MPI functions/symbols ...")
macros = ("MPICH2 OPEN_MPI DEINO_MPI "
"MPICH_NAME LAM_MPI "
).strip().split()
ConfigTest = dedent('''\
#if !(%s)
#error "Unknown MPI"
#endif ''') % "||".join(["defined(%s)" % m for m in macros])
ok = config_cmd.try_compile(ConfigTest, headers=headers)
if not ok:
from conf.mpidistutils import ConfigureMPI
configure = ConfigureMPI(config_cmd)
results = configure.run()
configure.dump(results)
ext.define_macros += [('HAVE_CONFIG_H', 1)]
else:
for prefix, suffixes in (
("MPI_Type_create_f90_", ("integer", "real", "complex")),
):
for suffix in suffixes:
function = prefix + suffix
ok = config_cmd.check_function(
function, decl=1, call=1)
if not ok:
macro = "PyMPI_MISSING_" + function
ext.define_macros += [(macro, 1)]
def configure_mpe(ext, config_cmd):
from distutils import log
log.info("checking for MPE availability ...")
libraries = []
for libname in ('pthread', 'mpe', 'lmpe'):
if config_cmd.check_library(
libname, other_libraries=libraries):
libraries.insert(0, libname)
ok = (config_cmd.check_header("mpe.h",
headers=["stdlib.h",
"mpi.h"])
and
config_cmd.check_function("MPE_Init_log",
headers=["stdlib.h",
"mpi.h",
"mpe.h"],
libraries=libraries,
decl=0, call=1)
)
if ok:
ext.define_macros += [('HAVE_MPE', 1)]
if ((linux or darwin or solaris) and
libraries[0] == 'lmpe'):
ext.extra_link_args += whole_archive('lmpe')
for libname in libraries[1:]:
ext.extra_link_args += ['-l' + libname]
else:
ext.libraries += libraries
def configure_dl(ext, config_cmd):
from distutils import log
log.info("checking for dlopen() availability ...")
ok = config_cmd.check_header("dlfcn.h")
if ok : ext.define_macros += [('HAVE_DLFCN_H', 1)]
ok = config_cmd.check_library('dl')
if ok: ext.libraries += ['dl']
ok = config_cmd.check_function("dlopen",
libraries=['dl'],
decl=1, call=1)
if ok: ext.define_macros += [('HAVE_DLOPEN', 1)]
def configure_libmpe(lib, config_cmd):
libraries = []
for libname in ('pthread', 'mpe', 'lmpe'):
if config_cmd.check_library(
libname, other_libraries=libraries):
libraries.insert(0, libname)
if 'mpe' in libraries:
if ((linux or darwin or solaris) and
libraries[0] == 'lmpe'):
lib.extra_link_args += whole_archive('lmpe')
for libname in libraries[1:]:
lib.extra_link_args += ['-l' + libname]
else:
lib.libraries += libraries
def configure_libvt(lib, config_cmd):
if lib.name == 'vt':
ok = False
for vt_lib in ('vt-mpi', 'vt.mpi'):
ok = config_cmd.check_library(vt_lib)
if ok: break
if ok:
if linux or darwin or solaris:
lib.extra_link_args += whole_archive(vt_lib)
lib.extra_link_args += ['-lotf', '-lz', '-ldl']
else:
lib.libraries += [vt_lib, 'otf', 'z', 'dl']
elif lib.name in ('vt-mpi', 'vt-hyb'):
vt_lib = lib.name
ok = config_cmd.check_library(vt_lib)
if ok: lib.libraries = [vt_lib]
def configure_pyexe(exe, config_cmd):
from distutils import sysconfig
from distutils.util import split_quoted
if sys.platform.startswith('win'):
return
libraries = []
library_dirs = []
link_args = []
if not sysconfig.get_config_var('Py_ENABLE_SHARED'):
py_version = sysconfig.get_python_version()
py_abiflags = getattr(sys, 'abiflags', '')
libraries = ['python' + py_version + py_abiflags]
cfg_vars = sysconfig.get_config_vars()
if sys.platform == 'darwin':
fwkdir = cfg_vars.get('PYTHONFRAMEWORKDIR')
if (fwkdir and fwkdir != 'no-framework' and
fwkdir in cfg_vars.get('LINKFORSHARED', '')):
del libraries[:]
for var in ('LIBDIR', 'LIBPL'):
library_dirs += split_quoted(cfg_vars.get(var, ''))
for var in ('LDFLAGS',
'LIBS', 'SYSLIBS',
'LDLAST'):
link_args += split_quoted(cfg_vars.get(var, ''))
exe.libraries += libraries
exe.library_dirs += library_dirs
exe.extra_link_args += link_args
def ext_modules():
modules = []
# MPI extension module
from glob import glob
MPI = dict(
name='mpi4py.MPI',
sources=['src/MPI.c'],
depends=(['src/mpi4py.MPI.c'] +
glob('src/*.h') +
glob('src/config/*.h') +
glob('src/compat/*.h')
),
configure=configure_mpi,
)
modules.append(MPI)
# MPE extension module
MPE = dict(
name='mpi4py.MPE',
optional=True,
sources=['src/MPE.c'],
depends=['src/mpi4py.MPE.c',
'src/MPE/mpe-log.h',
'src/MPE/mpe-log.c',
],
configure=configure_mpe,
)
modules.append(MPE)
# custom dl extension module
dl = dict(
name='mpi4py.dl',
optional=True,
sources=['src/dynload.c'],
depends=['src/dynload.h'],
configure=configure_dl,
)
if os.name == 'posix':
modules.append(dl)
#
return modules
def libraries():
# MPE logging
pmpi_mpe = dict(
name='mpe', kind='dylib',
optional=True,
package='mpi4py',
dest_dir='lib-pmpi',
sources=['src/pmpi-mpe.c'],
configure=configure_libmpe,
)
# VampirTrace logging
pmpi_vt = dict(
name='vt', kind='dylib',
optional=True,
package='mpi4py',
dest_dir='lib-pmpi',
sources=['src/pmpi-vt.c'],
configure=configure_libvt,
)
pmpi_vt_mpi = dict(
name='vt-mpi', kind='dylib',
optional=True,
package='mpi4py',
dest_dir='lib-pmpi',
sources=['src/pmpi-vt-mpi.c'],
configure=configure_libvt,
)
pmpi_vt_hyb = dict(
name='vt-hyb', kind='dylib',
optional=True,
package='mpi4py',
dest_dir='lib-pmpi',
sources=['src/pmpi-vt-hyb.c'],
configure=configure_libvt,
)
#
return [
pmpi_mpe,
pmpi_vt,
pmpi_vt_mpi,
pmpi_vt_hyb,
]
def executables():
# MPI-enabled Python interpreter
pyexe = dict(name='python-mpi',
optional=True,
package='mpi4py',
dest_dir='bin',
sources=['src/python.c'],
configure=configure_pyexe,
)
#
return [pyexe]
# --------------------------------------------------------------------
# Setup
# --------------------------------------------------------------------
from conf.mpidistutils import setup
from conf.mpidistutils import Extension as Ext
from conf.mpidistutils import Library as Lib
from conf.mpidistutils import Executable as Exe
CYTHON = '0.15'
def run_setup():
"""
Call distutils.setup(*targs, **kwargs)
"""
if ('setuptools' in sys.modules):
from os.path import exists, join
metadata['zip_safe'] = False
if not exists(join('src', 'mpi4py.MPI.c')):
metadata['install_requires'] = ['Cython>='+CYTHON]
#
setup(packages = ['mpi4py'],
package_dir = {'mpi4py' : 'src'},
package_data = {'mpi4py' : ['include/mpi4py/*.h',
'include/mpi4py/*.pxd',
'include/mpi4py/*.pyx',
'include/mpi4py/*.pxi',
'include/mpi4py/*.i',
'MPI.pxd', 'mpi_c.pxd',]},
ext_modules = [Ext(**ext) for ext in ext_modules()],
libraries = [Lib(**lib) for lib in libraries() ],
executables = [Exe(**exe) for exe in executables()],
**metadata)
def chk_cython(VERSION):
import re
from distutils import log
from distutils.version import LooseVersion
from distutils.version import StrictVersion
warn = lambda msg='': sys.stderr.write(msg+'\n')
#
cython_zip = 'cython.zip'
if os.path.isfile(cython_zip):
path = os.path.abspath(cython_zip)
if sys.path[0] != path:
sys.path.insert(0, path)
log.info("adding '%s' to sys.path", cython_zip)
#
try:
import Cython
except ImportError:
warn("*"*80)
warn()
warn(" You need to generate C source files with Cython!!")
warn(" Download and install Cython <http://www.cython.org>")
warn()
warn("*"*80)
return False
#
try:
CYTHON_VERSION = Cython.__version__
except AttributeError:
from Cython.Compiler.Version import version as CYTHON_VERSION
REQUIRED = VERSION
m = re.match(r"(\d+\.\d+(?:\.\d+)?).*", CYTHON_VERSION)
if m:
Version = StrictVersion
AVAILABLE = m.groups()[0]
else:
Version = LooseVersion
AVAILABLE = CYTHON_VERSION
if (REQUIRED is not None and
Version(AVAILABLE) < Version(REQUIRED)):
warn("*"*80)
warn()
warn(" You need to install Cython %s (you have version %s)"
% (REQUIRED, CYTHON_VERSION))
warn(" Download and install Cython <http://www.cython.org>")
warn()
warn("*"*80)
return False
#
return True
def run_cython(source, depends=(), includes=(),
destdir_c=None, destdir_h=None,
wdir=None, force=False, VERSION=None):
from glob import glob
from distutils import log
from distutils import dep_util
from distutils.errors import DistutilsError
target = os.path.splitext(source)[0]+".c"
cwd = os.getcwd()
try:
if wdir: os.chdir(wdir)
alldeps = [source]
for dep in depends:
alldeps += glob(dep)
if not (force or dep_util.newer_group(alldeps, target)):
log.debug("skipping '%s' -> '%s' (up-to-date)",
source, target)
return
finally:
os.chdir(cwd)
if not chk_cython(VERSION):
raise DistutilsError('requires Cython>=%s' % VERSION)
log.info("cythonizing '%s' -> '%s'", source, target)
from conf.cythonize import cythonize
err = cythonize(source,
includes=includes,
destdir_c=destdir_c,
destdir_h=destdir_h,
wdir=wdir)
if err:
raise DistutilsError(
"Cython failure: '%s' -> '%s'" % (source, target))
def build_sources(cmd):
from distutils.errors import DistutilsError
from os.path import exists, isdir, join
has_src = (exists(join('src', 'mpi4py.MPI.c')) and
exists(join('src', 'mpi4py.MPE.c')))
has_vcs = (isdir('.hg') or isdir('.git') or isdir('.svn'))
if (has_src and not has_vcs and not cmd.force): return
# mpi4py.MPI
source = 'mpi4py.MPI.pyx'
depends = ("include/*/*.pxi",
"include/*/*.pxd",
"MPI/*.pyx",
"MPI/*.pxi",)
includes = ['include']
destdir_h = os.path.join('include', 'mpi4py')
run_cython(source, depends, includes,
destdir_c=None, destdir_h=destdir_h,
wdir='src', force=cmd.force, VERSION=CYTHON)
# mpi4py.MPE
source = 'mpi4py.MPE.pyx'
depends = ("MPE/*.pyx",
"MPE/*.pxi",)
includes = ['include']
run_cython(source, depends, includes,
destdir_c=None, destdir_h=None,
wdir='src', force=cmd.force, VERSION=CYTHON)
from conf.mpidistutils import build_src
build_src.run = build_sources
def run_testsuite(cmd):
from distutils.errors import DistutilsError
sys.path.insert(0, 'test')
try:
from runtests import main
finally:
del sys.path[0]
err = main(cmd.args or [])
if err:
raise DistutilsError("test")
from conf.mpidistutils import test
test.run = run_testsuite
def main():
run_setup()
if __name__ == '__main__':
main()
# --------------------------------------------------------------------
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