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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 *
from spack.pkg.builtin.boost import Boost
class Xios(Package):
"""XML-IO-SERVER library for IO management of climate models."""
homepage = "https://forge.ipsl.jussieu.fr/ioserver/wiki"
version("develop", svn="http://forge.ipsl.jussieu.fr/ioserver/svn/XIOS/trunk")
version(
"2.5", revision=1860, svn="http://forge.ipsl.jussieu.fr/ioserver/svn/XIOS/branchs/xios-2.5"
)
version(
"2.0", revision=1627, svn="http://forge.ipsl.jussieu.fr/ioserver/svn/XIOS/branchs/xios-2.0"
)
version(
"1.0", revision=910, svn="http://forge.ipsl.jussieu.fr/ioserver/svn/XIOS/branchs/xios-1.0"
)
variant(
"mode",
values=("debug", "dev", "prod"),
default="dev",
description="Build for debugging, development or production",
)
# NOTE: oasis coupler could be supported with a variant
# Use spack versions of blitz and netcdf-c for compatibility
# with recent compilers and optimised platform libraries:
patch("bld_extern_1.0.patch", when="@:1.0")
# Workaround bug #17782 in llvm, where reading a double
# followed by a character is broken (e.g. duration '1d'):
patch("llvm_bug_17782.patch", when="@1.1: %apple-clang")
patch("llvm_bug_17782.patch", when="@1.1: %clang")
depends_on("netcdf-c+mpi")
depends_on("netcdf-fortran")
depends_on("hdf5+mpi")
depends_on("mpi")
# TODO: replace this with an explicit list of components of Boost,
# for instance depends_on('boost +filesystem')
# See https://github.com/spack/spack/pull/22303 for reference
depends_on(Boost.with_default_variants)
depends_on("blitz")
depends_on("perl", type="build")
depends_on("perl-uri", type="build")
depends_on("gmake", type="build")
@when("%clang")
def patch(self):
self.patch_llvm()
@when("%apple-clang")
def patch(self):
self.patch_llvm()
def patch_llvm(self):
"""Fix type references that are ambiguous for clang."""
for dirpath, dirnames, filenames in os.walk("src"):
for filename in filenames:
filepath = os.path.join(dirpath, filename)
# Use boost definition of type shared_ptr:
filter_file(r"([^:/])shared_ptr<", r"\1boost::shared_ptr<", filepath)
# Use type long for position in output stream:
filter_file(
r"oss.tellp\(\) *- *startPos", r"(long)oss.tellp() - startPos", filepath
)
def xios_env(self):
file = join_path("arch", "arch-SPACK.env")
touch(file)
def xios_path(self):
file = join_path("arch", "arch-SPACK.path")
spec = self.spec
paths = {
"NETCDF_INC_DIR": spec["netcdf-c"].prefix.include,
"NETCDF_LIB_DIR": spec["netcdf-c"].prefix.lib,
"HDF5_INC_DIR": spec["hdf5"].prefix.include,
"HDF5_LIB_DIR": spec["hdf5"].prefix.lib,
}
text = r"""
NETCDF_INCDIR="-I {NETCDF_INC_DIR}"
NETCDF_LIBDIR="-L {NETCDF_LIB_DIR}"
NETCDF_LIB="-lnetcdff -lnetcdf"
MPI_INCDIR=""
MPI_LIBDIR=""
MPI_LIB=""
HDF5_INCDIR="-I {HDF5_INC_DIR}"
HDF5_LIBDIR="-L {HDF5_LIB_DIR}"
HDF5_LIB="-lhdf5_hl -lhdf5"
OASIS_INCDIR=""
OASIS_LIBDIR=""
OASIS_LIB=""
"""
with open(file, "w") as f:
f.write(text.format(**paths))
def xios_fcm(self):
file = join_path("arch", "arch-SPACK.fcm")
spec = self.spec
param = dict()
param["MPICXX"] = spec["mpi"].mpicxx
param["MPIFC"] = spec["mpi"].mpifc
param["CC"] = self.compiler.cc
param["FC"] = self.compiler.fc
param["BOOST_INC_DIR"] = spec["boost"].prefix.include
param["BOOST_LIB_DIR"] = spec["boost"].prefix.lib
param["BLITZ_INC_DIR"] = spec["blitz"].prefix.include
param["BLITZ_LIB_DIR"] = spec["blitz"].prefix.lib
if spec.satisfies("%apple-clang"):
param["LIBCXX"] = "-lc++"
else:
param["LIBCXX"] = "-lstdc++"
if any(map(spec.satisfies, ("%gcc", "%intel", "%apple-clang", "%clang", "%fj"))):
text = r"""
%CCOMPILER {MPICXX}
%FCOMPILER {MPIFC}
%LINKER {MPIFC}
%BASE_CFLAGS -ansi -w -D_GLIBCXX_USE_CXX11_ABI=0 \
-I{BOOST_INC_DIR} -I{BLITZ_INC_DIR}
%PROD_CFLAGS -O3 -DBOOST_DISABLE_ASSERTS
%DEV_CFLAGS -g -O2
%DEBUG_CFLAGS -g
%BASE_FFLAGS -D__NONE__
%PROD_FFLAGS -O3
%DEV_FFLAGS -g -O2
%DEBUG_FFLAGS -g
%BASE_INC -D__NONE__
%BASE_LD -L{BOOST_LIB_DIR} -L{BLITZ_LIB_DIR} -lblitz {LIBCXX}
%CPP {CC} -E
%FPP {CC} -E -P -x c
%MAKE gmake
""".format(
**param
)
elif spec.satisfies("%cce"):
# In the CC compiler prior to cce/8.3.7,
# optimisation must be reduced to avoid a bug,
# as reported by Mike Rezny at the UK Met Office:
if spec.satisfies("%cce@8.3.7:"):
param.update({"CC_OPT_DEV": "-O2", "CC_OPT_PROD": "-O3"})
else:
param.update({"CC_OPT_DEV": "-O1", "CC_OPT_PROD": "-O1"})
text = r"""
%CCOMPILER {MPICXX}
%FCOMPILER {MPIFC}
%LINKER {MPIFC}
%BASE_CFLAGS -DMPICH_SKIP_MPICXX -h msglevel_4 -h zero -h gnu \
-I{BOOST_INC_DIR} -I{BLITZ_INC_DIR}
%PROD_CFLAGS {CC_OPT_PROD} -DBOOST_DISABLE_ASSERTS
%DEV_CFLAGS {CC_OPT_DEV}
%DEBUG_CFLAGS -g
%BASE_FFLAGS -em -m 4 -e0 -eZ
%PROD_FFLAGS -O3
%DEV_FFLAGS -G2
%DEBUG_FFLAGS -g
%BASE_INC -D__NONE__
%BASE_LD -D__NONE__ -L{BOOST_LIB_DIR} -L{BLITZ_LIB_DIR} -lblitz
%CPP cpp
%FPP cpp -P -CC
%MAKE gmake
""".format(
**param
)
else:
raise InstallError("Unsupported compiler.")
with open(file, "w") as f:
f.write(text)
def install(self, spec, prefix):
env["CC"] = spec["mpi"].mpicc
env["CXX"] = spec["mpi"].mpicxx
env["F77"] = spec["mpi"].mpif77
env["FC"] = spec["mpi"].mpifc
options = [
"--full",
"--%s" % spec.variants["mode"].value,
"--arch",
"SPACK",
"--netcdf_lib",
"netcdf4_par",
"--job",
str(make_jobs),
]
self.xios_env()
self.xios_path()
self.xios_fcm()
make_xios = Executable("./make_xios")
make_xios(*options)
mkdirp(spec.prefix)
install_tree("bin", spec.prefix.bin)
install_tree("lib", spec.prefix.lib)
install_tree("inc", spec.prefix.include)
install_tree("etc", spec.prefix.etc)
install_tree("cfg", spec.prefix.cfg)
@run_after("install")
@on_package_attributes(run_tests=True)
def check_build(self):
mpirun = os.getenv("MPIRUN")
if mpirun is None:
mpirun = "mpiexec"
mpiexec = Executable(mpirun)
with working_dir("inputs"):
try:
mpiexec("-n", "2", join_path("..", "bin", "test_client.exe"))
except Exception:
raise InstallError("Test failed; defining MPIRUN variable may help.")
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