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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)
from spack.package import *
from spack.util.environment import is_system_path
class Silo(AutotoolsPackage):
"""Silo is a library for reading and writing a wide variety of scientific
data to binary, disk files."""
homepage = "https://wci.llnl.gov/simulation/computer-codes/silo"
url = "https://wci.llnl.gov/sites/wci/files/2021-01/silo-4.10.2.tgz"
version(
"4.11",
sha256="ab936c1f4fc158d9fdc4415965f7d9def7f4abeca596fe5a25bd8485654898ac",
url="https://github.com/LLNL/Silo/releases/download/v4.11/silo-4.11.tar.gz",
)
version(
"4.11-bsd",
sha256="6d0a85a079d48fcdcc0084ecb5fc4cfdcc64852edee780c60cb244d16f4bc4ec",
url="https://github.com/LLNL/Silo/releases/download/v4.11/silo-4.11-bsd.tar.gz",
)
version(
"4.10.2",
sha256="3af87e5f0608a69849c00eb7c73b11f8422fa36903dd14610584506e7f68e638",
preferred=True,
)
version(
"4.10.2-bsd",
sha256="4b901dfc1eb4656e83419a6fde15a2f6c6a31df84edfad7f1dc296e01b20140e",
url="https://wci.llnl.gov/sites/wci/files/2021-01/silo-4.10.2-bsd.tgz",
)
version("4.9", sha256="90f3d069963d859c142809cfcb034bc83eb951f61ac02ccb967fc8e8d0409854")
version("4.8", sha256="c430c1d33fcb9bc136a99ad473d535d6763bd1357b704a915ba7b1081d58fb21")
variant("fortran", default=True, description="Enable Fortran support")
variant("shared", default=True, description="Build shared libraries")
variant("silex", default=False, description="Builds Silex, a GUI for viewing Silo files")
variant("pic", default=True, description="Produce position-independent code (for shared libs)")
variant("mpi", default=True, description="Compile with MPI Compatibility")
variant("hdf5", default=True, description="Support HDF5 for database I/O")
variant("hzip", default=True, description="Enable hzip support")
variant("fpzip", default=True, description="Enable fpzip support")
depends_on("m4", type="build", when="+shared")
depends_on("autoconf", type="build", when="+shared")
depends_on("autoconf-archive", type="build", when="+shared")
depends_on("automake", type="build", when="+shared")
depends_on("libtool", type="build", when="+shared")
depends_on("mpi", when="+mpi")
depends_on("hdf5@1.8", when="@:4.10+hdf5")
depends_on("hdf5@1.12:", when="@4.11:+hdf5")
depends_on("qt+gui~framework@4.8:4.9", when="+silex")
depends_on("libx11", when="+silex")
# Xmu dependency is required on Ubuntu 18-20
depends_on("libxmu", when="+silex")
depends_on("readline")
depends_on("zlib")
patch("remove-mpiposix.patch", when="@4.8:4.10.2")
# hdf5 1.10 added an additional field to the H5FD_class_t struct
patch("H5FD_class_t-terminate.patch", when="@:4.10.2-bsd")
# H5EPR_SEMI_COLON.patch was fixed in current dev
patch("H5EPR_SEMI_COLON.patch", when="@:4.11-bsd")
# Fix missing F77 init, fixed in 4.9
patch("48-configure-f77.patch", when="@:4.8")
# The previously used AX_CHECK_COMPILER_FLAGS macro was dropped from
# autoconf-archive in 2011
patch("configure-AX_CHECK_COMPILE_FLAG.patch")
# API changes in hdf5-1.13 cause breakage
# See https://github.com/LLNL/Silo/pull/260
patch("hdf5-113.patch", when="@4.11: +hdf5 ^hdf5@1.13:")
conflicts("hdf5@1.13:", when="@:4.10.2-bsd")
# hzip and fpzip are not available in the BSD releases
conflicts("+hzip", when="@4.10.2-bsd,4.11-bsd")
conflicts("+fpzip", when="@4.10.2-bsd,4.11-bsd")
# zfp include missing
patch("zfp_error.patch", when="@4.11 +hdf5")
def flag_handler(self, name, flags):
spec = self.spec
if name == "ldflags":
if "+hdf5" in spec:
if spec["hdf5"].satisfies("~shared"):
flags.append("-ldl")
flags.append(spec["readline"].libs.search_flags)
if "+pic" in spec:
if name == "cflags":
flags.append(self.compiler.cc_pic_flag)
elif name == "cxxflags":
flags.append(self.compiler.cxx_pic_flag)
elif name == "fcflags":
flags.append(self.compiler.fc_pic_flag)
if name == "cflags" or name == "cxxflags":
if "+hdf5" in spec:
# @:4.10 can use up to the 1.10 API
if "@:4.10" in spec:
if "@1.10:" in spec["hdf5"]:
flags.append("-DH5_USE_110_API")
elif "@1.8:" in spec["hdf5"]:
# Just in case anytone is trying to force the 1.6 api for
# some reason
flags.append("-DH5_USE_18_API")
else:
# @4.11: can use newer HDF5 APIs, so this ensures silo is
# presented with an HDF5 API consistent with the HDF5 version.
# Use the latest even-numbered API version, i.e. v1.13.1 uses
# API v1.12
maj_ver = int(spec["hdf5"].version[0])
min_ver = int(spec["hdf5"].version[1])
min_apiver = int(min_ver / 2) * 2
flags.append("-DH5_USE_{0}{1}_API".format(maj_ver, min_apiver))
if spec.compiler.name in ["clang", "apple-clang"]:
flags.append("-Wno-implicit-function-declaration")
return (flags, None, None)
@when("%clang@9:")
def patch(self):
self.clang_9_patch()
@when("%apple-clang@11.0.3:")
def patch(self):
self.clang_9_patch()
def clang_9_patch(self):
# Clang 9 and later include macro definitions in <math.h> that conflict
# with typedefs DOMAIN and RANGE used in Silo plugins.
# It looks like the upstream fpzip repo has been fixed, but that change
# hasn't yet made it into silo.
# https://github.com/LLNL/fpzip/blob/master/src/pcmap.h
if str(self.spec.version).endswith("-bsd"):
# The files below don't exist in the BSD licenced version
return
def repl(match):
# Change macro-like uppercase to title-case.
return match.group(1).title()
files_to_filter = [
"src/fpzip/codec.h",
"src/fpzip/pcdecoder.inl",
"src/fpzip/pcencoder.inl",
"src/fpzip/pcmap.h",
"src/fpzip/pcmap.inl",
"src/fpzip/read.cpp",
"src/fpzip/write.cpp",
"src/hzip/hzmap.h",
"src/hzip/hzresidual.h",
]
filter_file(r"\b(DOMAIN|RANGE|UNION)\b", repl, *files_to_filter)
@property
def force_autoreconf(self):
# Update autoconf's tests whether libtool supports shared libraries.
# (Otherwise, shared libraries are always disabled on Darwin.)
if self.spec.satisfies("@4.11-bsd") or self.spec.satisfies("@4.10.2-bsd"):
return False
else:
return self.spec.satisfies("+shared")
def configure_args(self):
spec = self.spec
config_args = [
"--enable-install-lite-headers",
"--enable-fortran" if "+fortran" in spec else "--disable-fortran",
"--enable-silex" if "+silex" in spec else "--disable-silex",
"--enable-shared" if "+shared" in spec else "--disable-shared",
"--enable-hzip" if "+hzip" in spec else "--disable-hzip",
"--enable-fpzip" if "+fpzip" in spec else "--disable-fpzip",
]
# Do not specify the prefix of zlib if it is in a system directory
# (see https://github.com/spack/spack/pull/21900).
zlib_prefix = self.spec["zlib"].prefix
if is_system_path(zlib_prefix):
config_args.append("--with-zlib=yes")
else:
config_args.append("--with-zlib=%s,%s" % (zlib_prefix.include, zlib_prefix.lib))
if "+hdf5" in spec:
config_args.append(
"--with-hdf5=%s,%s" % (spec["hdf5"].prefix.include, spec["hdf5"].prefix.lib)
)
if "+silex" in spec:
x = spec["libx11"]
config_args.extend(
[
"--with-Qt-dir=" + spec["qt"].prefix,
"--with-Qt-lib=QtGui -lQtCore",
"--x-includes=" + x.prefix.include,
"--x-libraries=" + x.prefix.lib,
]
)
if "+mpi" in spec:
config_args.append("CC=%s" % spec["mpi"].mpicc)
config_args.append("CXX=%s" % spec["mpi"].mpicxx)
config_args.append("FC=%s" % spec["mpi"].mpifc)
return config_args
@property
def libs(self):
shared = "+shared" in self.spec
return find_libraries("libsilo*", root=self.prefix, shared=shared, recursive=True)
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