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# Copyright 2013-2023 Lawrence Livermore National Security, LLC and other
# Spack Project Developers. See the top-level COPYRIGHT file for details.
#
# SPDX-License-Identifier: (Apache-2.0 OR MIT)
import os
from spack.package import *
class ParallelNetcdf(AutotoolsPackage):
"""PnetCDF (Parallel netCDF) is a high-performance parallel I/O
library for accessing files in format compatibility with Unidata's
NetCDF, specifically the formats of CDF-1, 2, and 5.
"""
homepage = "https://parallel-netcdf.github.io/"
git = "https://github.com/Parallel-NetCDF/PnetCDF"
url = "https://parallel-netcdf.github.io/Release/pnetcdf-1.11.0.tar.gz"
list_url = "https://parallel-netcdf.github.io/wiki/Download.html"
maintainers("skosukhin")
tags = ["e4s"]
test_requires_compiler = True
def url_for_version(self, version):
if version >= Version("1.11.0"):
url = "https://parallel-netcdf.github.io/Release/pnetcdf-{0}.tar.gz"
else:
url = "https://parallel-netcdf.github.io/Release/parallel-netcdf-{0}.tar.gz"
return url.format(version.dotted)
version("master", branch="master")
version("1.12.3", sha256="439e359d09bb93d0e58a6e3f928f39c2eae965b6c97f64e67cd42220d6034f77")
version("1.12.2", sha256="3ef1411875b07955f519a5b03278c31e566976357ddfc74c2493a1076e7d7c74")
version("1.12.1", sha256="56f5afaa0ddc256791c405719b6436a83b92dcd5be37fe860dea103aee8250a2")
version("1.11.2", sha256="d2c18601b364c35b5acb0a0b46cd6e14cae456e0eb854e5c789cf65f3cd6a2a7")
version("1.11.1", sha256="0c587b707835255126a23c104c66c9614be174843b85b897b3772a590be45779")
version("1.11.0", sha256="a18a1a43e6c4fd7ef5827dbe90e9dcf1363b758f513af1f1356ed6c651195a9f")
version("1.10.0", sha256="ed189228b933cfeac3b7b4f8944eb00e4ff2b72cf143365b1a77890980663a09")
version("1.9.0", sha256="356e1e1fae14bc6c4236ec11435cfea0ff6bde2591531a4a329f9508a01fbe98")
version("1.8.1", sha256="8d7d4c9c7b39bb1cbbcf087e0d726551c50f0cc30d44aed3df63daf3772c9043")
version("1.8.0", sha256="ac00bb2333bee96354de9d9c32d3dfdaa919d878098762f146996578b7f0ede9")
version("1.7.0", sha256="52f0d106c470a843c6176318141f74a21e6ece3f70ee8fe261c6b93e35f70a94")
version("1.6.1", sha256="8cf1af7b640475e3cc931e5fbcfe52484c5055f2fab526691933c02eda388aae")
variant("cxx", default=True, description="Build the C++ Interface")
variant("fortran", default=True, description="Build the Fortran Interface")
variant("pic", default=True, description="Produce position-independent code (for shared libs)")
variant("shared", default=True, description="Enable shared library")
variant("burstbuffer", default=False, description="Enable burst buffer feature")
depends_on("mpi")
depends_on("m4", type="build")
depends_on("autoconf", when="@master", type="build")
depends_on("automake", when="@master", type="build")
depends_on("libtool", when="@master", type="build")
depends_on("perl", type="build")
# Suport for shared libraries was introduced in version 1.9.0
conflicts("+shared", when="@:1.8")
conflicts("+burstbuffer", when="@:1.10")
# Before 1.10.0, C utility programs (e.g. ncmpigen) were linked without
# explicit specification of the Fortran runtime libraries, which is
# required when libpnetcdf.so contains Fortran symbols. Libtool sets the
# required linking flags implicitly but only if the Fortran compiler
# produces verbose output with the '-v' flag (and, due to a bug in Libtool,
# when CXX is not set to 'no'; see macro _LT_LANG_FC_CONFIG in libtool.m4
# for more details). The latter is not the case for NAG. Starting 1.10.0,
# the required linking flags are explicitly set in the makefiles and
# detected using macro AC_FC_LIBRARY_LDFLAGS, which means that we can
# override the verbose output flag for Fortran compiler on the command line
# (see below).
conflicts("+shared", when="@:1.9%nag+fortran")
@property
def libs(self):
libraries = ["libpnetcdf"]
query_parameters = self.spec.last_query.extra_parameters
if "shared" in query_parameters:
shared = True
elif "static" in query_parameters:
shared = False
else:
shared = "+shared" in self.spec
libs = find_libraries(libraries, root=self.prefix, shared=shared, recursive=True)
if libs:
return libs
msg = "Unable to recursively locate {0} {1} libraries in {2}"
raise spack.error.NoLibrariesError(
msg.format("shared" if shared else "static", self.spec.name, self.spec.prefix)
)
@when("@master")
def autoreconf(self, spec, prefix):
with working_dir(self.configure_directory):
# We do not specify '-f' because we need to use libtool files from
# the repository.
autoreconf("-iv")
def configure_args(self):
args = ["--with-mpi=%s" % self.spec["mpi"].prefix, "SEQ_CC=%s" % spack_cc]
args += self.enable_or_disable("cxx")
args += self.enable_or_disable("fortran")
flags = {"CFLAGS": [], "CXXFLAGS": [], "FFLAGS": [], "FCFLAGS": []}
if "+pic" in self.spec:
flags["CFLAGS"].append(self.compiler.cc_pic_flag)
flags["CXXFLAGS"].append(self.compiler.cxx_pic_flag)
flags["FFLAGS"].append(self.compiler.f77_pic_flag)
flags["FCFLAGS"].append(self.compiler.fc_pic_flag)
# https://github.com/Parallel-NetCDF/PnetCDF/issues/61
if self.spec.satisfies("%gcc@10:"):
flags["FFLAGS"].append("-fallow-argument-mismatch")
flags["FCFLAGS"].append("-fallow-argument-mismatch")
for key, value in sorted(flags.items()):
if value:
args.append("{0}={1}".format(key, " ".join(value)))
if self.version >= Version("1.8"):
args.append("--enable-relax-coord-bound")
if self.version >= Version("1.9"):
args += self.enable_or_disable("shared")
args.extend(["--enable-static", "--disable-silent-rules"])
if self.spec.satisfies("%nag+fortran+shared"):
args.extend(["ac_cv_prog_fc_v=-Wl,-v", "ac_cv_prog_f77_v=-Wl,-v"])
if "+burstbuffer" in self.spec:
args.append("--enable-burst-buffering")
return args
examples_src_dir = join_path("examples", "CXX")
@run_after("install")
def cache_test_sources(self):
"""Copy the example source files after the package is installed to an
install test subdirectory for use during `spack test run`."""
self.cache_extra_test_sources([self.examples_src_dir])
def test(self):
test_dir = join_path(self.test_suite.current_test_cache_dir, self.examples_src_dir)
# pnetcdf has many examples to serve as a suitable smoke check.
# column_wise was chosen based on the E4S test suite. Other
# examples should work as well.
test_exe = "column_wise"
options = [
"{0}.cpp".format(test_exe),
"-o",
test_exe,
"-lpnetcdf",
"-L{0}".format(self.prefix.lib),
"-I{0}".format(self.prefix.include),
]
reason = "test: compiling and linking pnetcdf example"
self.run_test(
self.spec["mpi"].mpicxx,
options,
[],
installed=False,
purpose=reason,
work_dir=test_dir,
)
mpiexe_list = [
self.spec["mpi"].prefix.bin.srun,
self.spec["mpi"].prefix.bin.mpirun,
self.spec["mpi"].prefix.bin.mpiexec,
]
for mpiexe in mpiexe_list:
if os.path.isfile(mpiexe):
self.run_test(
mpiexe,
["-n", "1", test_exe],
[],
installed=False,
purpose="test: pnetcdf smoke test",
skip_missing=True,
work_dir=test_dir,
)
break
self.run_test("rm", ["-f", test_exe], work_dir=test_dir)
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