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eb_hooks.py
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# Hooks to customize how EasyBuild installs software in EESSI
# see https://docs.easybuild.io/en/latest/Hooks.html
import glob
import os
import re
import easybuild.tools.environment as env
from easybuild.easyblocks.generic.configuremake import obtain_config_guess
from easybuild.framework.easyconfig.constants import EASYCONFIG_CONSTANTS
from easybuild.tools.build_log import EasyBuildError, print_msg
from easybuild.tools.config import build_option, update_build_option
from easybuild.tools.filetools import apply_regex_substitutions, copy_file, remove_file, symlink, which
from easybuild.tools.run import run_cmd
from easybuild.tools.systemtools import AARCH64, POWER, X86_64, get_cpu_architecture, get_cpu_features
from easybuild.tools.toolchain.compiler import OPTARCH_GENERIC
# prefer importing LooseVersion from easybuild.tools, but fall back to distuils in case EasyBuild <= 4.7.0 is used
try:
from easybuild.tools import LooseVersion
except ImportError:
from distutils.version import LooseVersion
CPU_TARGET_NEOVERSE_N1 = 'aarch64/neoverse_n1'
CPU_TARGET_NEOVERSE_V1 = 'aarch64/neoverse_v1'
CPU_TARGET_AARCH64_GENERIC = 'aarch64/generic'
CPU_TARGET_A64FX = 'aarch64/a64fx'
CPU_TARGET_NVIDIA_GRACE = 'aarch64/nvidia/grace'
CPU_TARGET_SAPPHIRE_RAPIDS = 'x86_64/intel/sapphirerapids'
CPU_TARGET_ZEN4 = 'x86_64/amd/zen4'
EESSI_RPATH_OVERRIDE_ATTR = 'orig_rpath_override_dirs'
EESSI_MODULE_ONLY_ATTR = 'orig_module_only'
EESSI_FORCE_ATTR = 'orig_force'
SYSTEM = EASYCONFIG_CONSTANTS['SYSTEM'][0]
EESSI_INSTALLATION_REGEX = r"^/cvmfs/[^/]*.eessi.io/versions/"
HOST_INJECTIONS_LOCATION = "/cvmfs/software.eessi.io/host_injections/"
# Make sure a single environment variable name is used for this throughout the hooks
EESSI_IGNORE_ZEN4_GCC1220_ENVVAR="EESSI_IGNORE_LMOD_ERROR_ZEN4_GCC1220"
def is_gcccore_1220_based(**kwargs):
# ecname, ecversion, tcname, tcversion):
"""
Checks if this easyconfig either _is_ or _uses_ a GCCcore-12.2.0 based toolchain.
This function is, for example, used to generate errors in GCCcore-12.2.0 based modules for the zen4 architecture
since zen4 is not fully supported with that toolchain.
:param str ecname: Name of the software specified in the EasyConfig
:param str ecversion: Version of the software specified in the EasyConfig
:param str tcname: Toolchain name specified in the EasyConfig
:param str tcversion: Toolchain version specified in the EasyConfig
"""
ecname = kwargs.get('ecname', None)
ecversion = kwargs.get('ecversion', None)
tcname = kwargs.get('tcname', None)
tcversion = kwargs.get('tcversion', None)
gcccore_based_names = ['GCCcore', 'GCC']
foss_based_names = ['gfbf', 'gompi', 'foss']
return (
(tcname in foss_based_names and tcversion == '2022b') or
(tcname in gcccore_based_names and LooseVersion(tcversion) == LooseVersion('12.2.0')) or
(ecname in foss_based_names and ecversion == '2022b') or
(ecname in gcccore_based_names and LooseVersion(ecversion) == LooseVersion('12.2.0'))
)
def get_eessi_envvar(eessi_envvar):
"""Get an EESSI environment variable from the environment"""
eessi_envvar_value = os.getenv(eessi_envvar)
if eessi_envvar_value is None:
raise EasyBuildError("$%s is not defined!", eessi_envvar)
return eessi_envvar_value
def get_rpath_override_dirs(software_name):
# determine path to installations in software layer via $EESSI_SOFTWARE_PATH
eessi_software_path = get_eessi_envvar('EESSI_SOFTWARE_PATH')
# construct the rpath override directory stub
rpath_injection_stub = os.path.join(
# Make sure we are looking inside the `host_injections` directory
eessi_software_path.replace('versions', 'host_injections', 1),
# Add the subdirectory for the specific software
'rpath_overrides',
software_name,
# We can't know the version, but this allows the use of a symlink
# to facilitate version upgrades without removing files
'system',
)
# Allow for libraries in lib or lib64
rpath_injection_dirs = [os.path.join(rpath_injection_stub, x) for x in ('lib', 'lib64')]
return rpath_injection_dirs
def parse_hook(ec, *args, **kwargs):
"""Main parse hook: trigger custom functions based on software name."""
# determine path to Prefix installation in compat layer via $EPREFIX
eprefix = get_eessi_envvar('EPREFIX')
if ec.name in PARSE_HOOKS:
PARSE_HOOKS[ec.name](ec, eprefix)
# Always trigger this one, regardless of ec.name
cpu_target = get_eessi_envvar('EESSI_SOFTWARE_SUBDIR')
if cpu_target == CPU_TARGET_ZEN4:
parse_hook_zen4_module_only(ec, eprefix)
# inject the GPU property (if required)
ec = inject_gpu_property(ec)
def post_ready_hook(self, *args, **kwargs):
"""
Post-ready hook: limit parallellism for selected builds, because they require a lot of memory per used core.
"""
# 'parallel' easyconfig parameter is set via EasyBlock.set_parallel in ready step based on available cores.
# here we reduce parallellism to only use half of that for selected software,
# to avoid failing builds/tests due to out-of-memory problems;
memory_hungry_build = self.name in ['libxc', 'MBX', 'TensorFlow']
# on A64FX systems, (HBM) memory is typically scarce, so we need to use fewer cores for some builds
cpu_target = get_eessi_envvar('EESSI_SOFTWARE_SUBDIR')
memory_hungry_build_a64fx = cpu_target == CPU_TARGET_A64FX and self.name in ['Qt5', 'ROOT']
if memory_hungry_build or memory_hungry_build_a64fx:
parallel = self.cfg['parallel']
if parallel > 1:
self.cfg['parallel'] = parallel // 2
msg = "limiting parallelism to %s (was %s) for %s to avoid out-of-memory failures during building/testing"
print_msg(msg % (self.cfg['parallel'], parallel, self.name), log=self.log)
def pre_prepare_hook(self, *args, **kwargs):
"""Main pre-prepare hook: trigger custom functions."""
# Check if we have an MPI family in the toolchain (returns None if there is not)
mpi_family = self.toolchain.mpi_family()
# Inject an RPATH override for MPI (if needed)
if mpi_family:
# Get list of override directories
mpi_rpath_override_dirs = get_rpath_override_dirs(mpi_family)
# update the relevant option (but keep the original value so we can reset it later)
if hasattr(self, EESSI_RPATH_OVERRIDE_ATTR):
raise EasyBuildError("'self' already has attribute %s! Can't use pre_prepare hook.",
EESSI_RPATH_OVERRIDE_ATTR)
setattr(self, EESSI_RPATH_OVERRIDE_ATTR, build_option('rpath_override_dirs'))
if getattr(self, EESSI_RPATH_OVERRIDE_ATTR):
# self.EESSI_RPATH_OVERRIDE_ATTR is (already) a colon separated string, let's make it a list
orig_rpath_override_dirs = [getattr(self, EESSI_RPATH_OVERRIDE_ATTR)]
rpath_override_dirs = ':'.join(orig_rpath_override_dirs + mpi_rpath_override_dirs)
else:
rpath_override_dirs = ':'.join(mpi_rpath_override_dirs)
update_build_option('rpath_override_dirs', rpath_override_dirs)
print_msg("Updated rpath_override_dirs (to allow overriding MPI family %s): %s",
mpi_family, rpath_override_dirs)
if self.name in PRE_PREPARE_HOOKS:
PRE_PREPARE_HOOKS[self.name](self, *args, **kwargs)
# Always trigger this one, regardless of ec.name
cpu_target = get_eessi_envvar('EESSI_SOFTWARE_SUBDIR')
if cpu_target == CPU_TARGET_ZEN4:
pre_prepare_hook_ignore_zen4_gcccore1220_error(self, *args, **kwargs)
def post_prepare_hook_gcc_prefixed_ld_rpath_wrapper(self, *args, **kwargs):
"""
Post-configure hook for GCCcore:
- copy RPATH wrapper script for linker commands to also have a wrapper in
place with system type prefix like 'x86_64-pc-linux-gnu'
"""
if self.name == 'GCCcore':
config_guess = obtain_config_guess()
system_type, _ = run_cmd(config_guess, log_all=True)
cmd_prefix = '%s-' % system_type.strip()
for cmd in ('ld', 'ld.gold', 'ld.bfd'):
wrapper = which(cmd)
self.log.info("Path to %s wrapper: %s" % (cmd, wrapper))
wrapper_dir = os.path.dirname(wrapper)
prefix_wrapper = os.path.join(wrapper_dir, cmd_prefix + cmd)
copy_file(wrapper, prefix_wrapper)
self.log.info("Path to %s wrapper with '%s' prefix: %s" % (cmd, cmd_prefix, which(prefix_wrapper)))
# we need to tweak the copied wrapper script, so that:
regex_subs = [
# - CMD in the script is set to the command name without prefix, because EasyBuild's rpath_args.py
# script that is used by the wrapper script only checks for 'ld', 'ld.gold', etc.
# when checking whether or not to use -Wl
('^CMD=.*', 'CMD=%s' % cmd),
# - the path to the correct actual binary is logged and called
('/%s ' % cmd, '/%s ' % (cmd_prefix + cmd)),
]
apply_regex_substitutions(prefix_wrapper, regex_subs)
else:
raise EasyBuildError("GCCcore-specific hook triggered for non-GCCcore easyconfig?!")
def post_prepare_hook(self, *args, **kwargs):
"""Main post-prepare hook: trigger custom functions."""
if hasattr(self, EESSI_RPATH_OVERRIDE_ATTR):
# Reset the value of 'rpath_override_dirs' now that we are finished with it
update_build_option('rpath_override_dirs', getattr(self, EESSI_RPATH_OVERRIDE_ATTR))
print_msg("Resetting rpath_override_dirs to original value: %s", getattr(self, EESSI_RPATH_OVERRIDE_ATTR))
delattr(self, EESSI_RPATH_OVERRIDE_ATTR)
if self.name in POST_PREPARE_HOOKS:
POST_PREPARE_HOOKS[self.name](self, *args, **kwargs)
# Always trigger this one, regardless of ec.name
cpu_target = get_eessi_envvar('EESSI_SOFTWARE_SUBDIR')
if cpu_target == CPU_TARGET_ZEN4:
post_prepare_hook_ignore_zen4_gcccore1220_error(self, *args, **kwargs)
def parse_hook_casacore_disable_vectorize(ec, eprefix):
"""
Disable 'vectorize' toolchain option for casacore 3.5.0 on aarch64/neoverse_v1
Compiling casacore 3.5.0 with GCC 13.2.0 (foss-2023b) gives an error when building for aarch64/neoverse_v1.
See also, https://github.com/EESSI/software-layer/pull/479
"""
if ec.name == 'casacore':
tcname, tcversion = ec['toolchain']['name'], ec['toolchain']['version']
if (
LooseVersion(ec.version) == LooseVersion('3.5.0') and
tcname == 'foss' and tcversion == '2023b'
):
cpu_target = get_eessi_envvar('EESSI_SOFTWARE_SUBDIR')
if cpu_target == CPU_TARGET_NEOVERSE_V1:
# Make sure the toolchainopts key exists, and the value is a dict,
# before we add the option to disable vectorization
if 'toolchainopts' not in ec or ec['toolchainopts'] is None:
ec['toolchainopts'] = {}
ec['toolchainopts']['vectorize'] = False
print_msg("Changed toochainopts for %s: %s", ec.name, ec['toolchainopts'])
else:
print_msg("Not changing option vectorize for %s on non-neoverse_v1", ec.name)
else:
print_msg("Not changing option vectorize for %s %s %s", ec.name, ec.version, ec.toolchain)
else:
raise EasyBuildError("casacore-specific hook triggered for non-casacore easyconfig?!")
def parse_hook_cgal_toolchainopts_precise(ec, eprefix):
"""Enable 'precise' rather than 'strict' toolchain option for CGAL on POWER."""
if ec.name == 'CGAL':
if get_cpu_architecture() == POWER:
# 'strict' implies '-mieee-fp', which is not supported on POWER
# see https://github.com/easybuilders/easybuild-framework/issues/2077
ec['toolchainopts']['strict'] = False
ec['toolchainopts']['precise'] = True
print_msg("Tweaked toochainopts for %s: %s", ec.name, ec['toolchainopts'])
else:
raise EasyBuildError("CGAL-specific hook triggered for non-CGAL easyconfig?!")
def parse_hook_fontconfig_add_fonts(ec, eprefix):
"""Inject --with-add-fonts configure option for fontconfig."""
if ec.name == 'fontconfig':
# make fontconfig aware of fonts included with compat layer
with_add_fonts = '--with-add-fonts=%s' % os.path.join(eprefix, 'usr', 'share', 'fonts')
ec.update('configopts', with_add_fonts)
print_msg("Added '%s' configure option for %s", with_add_fonts, ec.name)
else:
raise EasyBuildError("fontconfig-specific hook triggered for non-fontconfig easyconfig?!")
def parse_hook_grpcio_zlib(ec, ecprefix):
"""Adjust preinstallopts to use ZLIB from compat layer."""
if ec.name == 'grpcio' and ec.version in ['1.57.0']:
exts_list = ec['exts_list']
original_preinstallopts = (exts_list[0][2])['preinstallopts']
original_option = "GRPC_PYTHON_BUILD_SYSTEM_ZLIB=True"
new_option = "GRPC_PYTHON_BUILD_SYSTEM_ZLIB=False"
(exts_list[0][2])['preinstallopts'] = original_preinstallopts.replace(original_option, new_option, 1)
print_msg("Modified the easyconfig to use compat ZLIB with GRPC_PYTHON_BUILD_SYSTEM_ZLIB=False")
else:
raise EasyBuildError("grpcio-specific hook triggered for a non-grpcio easyconfig?!")
def parse_hook_openblas_relax_lapack_tests_num_errors(ec, eprefix):
"""Relax number of failing numerical LAPACK tests for aarch64/neoverse_v1 CPU target for OpenBLAS < 0.3.23"""
cpu_target = get_eessi_envvar('EESSI_SOFTWARE_SUBDIR')
if ec.name == 'OpenBLAS':
if LooseVersion(ec.version) < LooseVersion('0.3.23'):
# relax maximum number of failed numerical LAPACK tests for aarch64/neoverse_v1 CPU target
# since the default setting of 150 that works well on other aarch64 targets and x86_64 is a bit too strict
# See https://github.com/EESSI/software-layer/issues/314
cfg_option = 'max_failing_lapack_tests_num_errors'
if cpu_target == CPU_TARGET_NEOVERSE_V1:
orig_value = ec[cfg_option]
ec[cfg_option] = 400
print_msg("Maximum number of failing LAPACK tests with numerical errors for %s relaxed to %s (was %s)",
ec.name, ec[cfg_option], orig_value)
else:
print_msg("Not changing option %s for %s on non-AARCH64", cfg_option, ec.name)
else:
raise EasyBuildError("OpenBLAS-specific hook triggered for non-OpenBLAS easyconfig?!")
def parse_hook_pybind11_replace_catch2(ec, eprefix):
"""
Replace Catch2 build dependency in pybind11 easyconfigs with one that doesn't use system toolchain.
cfr. https://github.com/easybuilders/easybuild-easyconfigs/pull/19270
"""
# this is mainly necessary to avoid that --missing keeps reporting Catch2/2.13.9 is missing,
# and to avoid that we need to use "--from-pr 19270" for every easyconfigs that (indirectly) depends on pybind11
if ec.name == 'pybind11' and ec.version in ['2.10.3', '2.11.1']:
build_deps = ec['builddependencies']
catch2_build_dep = None
catch2_name, catch2_version = ('Catch2', '2.13.9')
for idx, build_dep in enumerate(build_deps):
if build_dep[0] == catch2_name and build_dep[1] == catch2_version:
catch2_build_dep = build_dep
break
if catch2_build_dep and len(catch2_build_dep) == 4 and catch2_build_dep[3] == SYSTEM:
build_deps[idx] = (catch2_name, catch2_version)
def parse_hook_qt5_check_qtwebengine_disable(ec, eprefix):
"""
Disable check for QtWebEngine in Qt5 as workaround for problem with determining glibc version.
"""
if ec.name == 'Qt5':
# workaround for glibc version being reported as "UNKNOWN" in Gentoo Prefix environment by EasyBuild v4.7.2,
# see also https://github.com/easybuilders/easybuild-framework/pull/4290
ec['check_qtwebengine'] = False
print_msg("Checking for QtWebEgine in Qt5 installation has been disabled")
else:
raise EasyBuildError("Qt5-specific hook triggered for non-Qt5 easyconfig?!")
def parse_hook_ucx_eprefix(ec, eprefix):
"""Make UCX aware of compatibility layer via additional configuration options."""
if ec.name == 'UCX':
ec.update('configopts', '--with-sysroot=%s' % eprefix)
ec.update('configopts', '--with-rdmacm=%s' % os.path.join(eprefix, 'usr'))
print_msg("Using custom configure options for %s: %s", ec.name, ec['configopts'])
else:
raise EasyBuildError("UCX-specific hook triggered for non-UCX easyconfig?!")
def parse_hook_freeimage_aarch64(ec, *args, **kwargs):
"""
Make sure to build with -fPIC on ARM to avoid
https://github.com/EESSI/software-layer/pull/736#issuecomment-2373261889
"""
if ec.name == 'FreeImage' and ec.version in ('3.18.0',):
if os.getenv('EESSI_CPU_FAMILY') == 'aarch64':
# Make sure the toolchainopts key exists, and the value is a dict,
# before we add the option to enable PIC and disable PNG_ARM_NEON_OPT
if 'toolchainopts' not in ec or ec['toolchainopts'] is None:
ec['toolchainopts'] = {}
ec['toolchainopts']['pic'] = True
ec['toolchainopts']['extra_cflags'] = '-DPNG_ARM_NEON_OPT=0'
print_msg("Changed toolchainopts for %s: %s", ec.name, ec['toolchainopts'])
def parse_hook_lammps_remove_deps_for_aarch64(ec, *args, **kwargs):
"""
Remove x86_64 specific dependencies for the CI and missing installations to pass on aarch64
"""
if ec.name == 'LAMMPS':
if ec.version in ('2Aug2023_update2', '29Aug2024'):
if os.getenv('EESSI_CPU_FAMILY') == 'aarch64':
# ScaFaCoS and tbb are not compatible with aarch64/* CPU targets,
# so remove them as dependencies for LAMMPS (they're optional);
# see also https://github.com/easybuilders/easybuild-easyconfigs/pull/19164 +
# https://github.com/easybuilders/easybuild-easyconfigs/pull/19000;
# we need this hook because we check for missing installations for all CPU targets
# on an x86_64 VM in GitHub Actions (so condition based on ARCH in LAMMPS easyconfig is always true)
ec['dependencies'] = [dep for dep in ec['dependencies'] if dep[0] not in ('ScaFaCoS', 'tbb',)]
else:
raise EasyBuildError("LAMMPS-specific hook triggered for non-LAMMPS easyconfig?!")
def parse_hook_CP2K_remove_deps_for_aarch64(ec, *args, **kwargs):
"""
Remove x86_64 specific dependencies for the CI and missing installations to pass on aarch64
"""
if ec.name == 'CP2K' and ec.version in ('2023.1',):
if os.getenv('EESSI_CPU_FAMILY') == 'aarch64':
# LIBXSMM is not supported on ARM with GCC 12.2.0 and 12.3.0
# See https://www.cp2k.org/dev:compiler_support
# See https://github.com/easybuilders/easybuild-easyconfigs/pull/20951
# we need this hook because we check for missing installations for all CPU targets
# on an x86_64 VM in GitHub Actions (so condition based on ARCH in LAMMPS easyconfig is always true)
ec['dependencies'] = [dep for dep in ec['dependencies'] if dep[0] not in ('libxsmm',)]
else:
raise EasyBuildError("CP2K-specific hook triggered for non-CP2K easyconfig?!")
def parse_hook_zen4_module_only(ec, eprefix):
"""
Use --force --module-only if building a foss-2022b-based EasyConfig for Zen4.
This toolchain will not be supported on Zen4, so we will generate a modulefile
and have it print an LmodError.
"""
if is_gcccore_1220_based(ecname=ec['name'], ecversion=ec['version'], tcname=ec['toolchain']['name'],
tcversion=ec['toolchain']['version']):
env_varname = EESSI_IGNORE_ZEN4_GCC1220_ENVVAR
# TODO: create a docs page to which we can refer for more info here
# TODO: then update the link to the known issues page to the _specific_ issue
# Need to escape newline character so that the newline character actually ends up in the module file
# (otherwise, it splits the string, and a 2-line string ends up in the modulefile, resulting in syntax error)
errmsg = "EasyConfigs using toolchains based on GCCcore-12.2.0 are not supported for the Zen4 architecture.\\n"
errmsg += "See https://www.eessi.io/docs/known_issues/eessi-2023.06/#gcc-1220-and-foss-2022b-based-modules-cannot-be-loaded-on-zen4-architecture"
ec['modluafooter'] = 'if (not os.getenv("%s")) then LmodError("%s") end' % (env_varname, errmsg)
def pre_fetch_hook(self, *args, **kwargs):
"""Main pre fetch hook: trigger custom functions based on software name."""
if self.name in PRE_FETCH_HOOKS:
PRE_FETCH_HOOKS[ec.name](self, *args, **kwargs)
# Always trigger this one, regardless of self.name
cpu_target = get_eessi_envvar('EESSI_SOFTWARE_SUBDIR')
if cpu_target == CPU_TARGET_ZEN4:
pre_fetch_hook_zen4_gcccore1220(self, *args, **kwargs)
def pre_fetch_hook_zen4_gcccore1220(self, *args, **kwargs):
"""Use --force --module-only if building a foss-2022b-based EasyConfig for Zen4.
This toolchain will not be supported on Zen4, so we will generate a modulefile
and have it print an LmodError.
"""
if is_gcccore_1220_based(ecname=self.name, ecversion=self.version, tcname=self.toolchain.name,
tcversion=self.toolchain.version):
if hasattr(self, EESSI_MODULE_ONLY_ATTR):
raise EasyBuildError("'self' already has attribute %s! Can't use pre_fetch hook.",
EESSI_MODULE_ONLY_ATTR)
setattr(self, EESSI_MODULE_ONLY_ATTR, build_option('module_only'))
update_build_option('module_only', 'True')
print_msg("Updated build option 'module-only' to 'True'")
if hasattr(self, EESSI_FORCE_ATTR):
raise EasyBuildError("'self' already has attribute %s! Can't use pre_fetch hook.",
EESSI_FORCE_ATTR)
setattr(self, EESSI_FORCE_ATTR, build_option('force'))
update_build_option('force', 'True')
print_msg("Updated build option 'force' to 'True'")
def post_module_hook_zen4_gcccore1220(self, *args, **kwargs):
"""Revert changes from pre_fetch_hook_zen4_gcccore1220"""
if is_gcccore_1220_based(ecname=self.name, ecversion=self.version, tcname=self.toolchain.name,
tcversion=self.toolchain.version):
if hasattr(self, EESSI_MODULE_ONLY_ATTR):
update_build_option('module_only', getattr(self, EESSI_MODULE_ONLY_ATTR))
print_msg("Restored original build option 'module_only' to %s" % getattr(self, EESSI_MODULE_ONLY_ATTR))
else:
raise EasyBuildError("Cannot restore module_only to it's original value: 'self' is missing attribute %s.",
EESSI_MODULE_ONLY_ATTR)
if hasattr(self, EESSI_FORCE_ATTR):
update_build_option('force', getattr(self, EESSI_FORCE_ATTR))
print_msg("Restored original build option 'force' to %s" % getattr(self, EESSI_FORCE_ATTR))
else:
raise EasyBuildError("Cannot restore force to it's original value: 'self' is misisng attribute %s.",
EESSI_FORCE_ATTR)
# Modules for dependencies are loaded in the prepare step. Thus, that's where we need this variable to be set
# so that the modules can be succesfully loaded without printing the error (so that we can create a module
# _with_ the warning for the current software being installed)
def pre_prepare_hook_ignore_zen4_gcccore1220_error(self, *args, **kwargs):
"""Set environment variable to ignore the LmodError from parse_hook_zen4_module_only during build phase"""
if is_gcccore_1220_based(ecname=self.name, ecversion=self.version, tcname=self.toolchain.name,
tcversion=self.toolchain.version):
os.environ[EESSI_IGNORE_ZEN4_GCC1220_ENVVAR] = "1"
def post_prepare_hook_ignore_zen4_gcccore1220_error(self, *args, **kwargs):
"""Unset environment variable to ignore the LmodError from parse_hook_zen4_module_only during build phase"""
if is_gcccore_1220_based(ecname=self.name, ecversion=self.version, tcname=self.toolchain.name,
tcversion=self.toolchain.version):
del os.environ[EESSI_IGNORE_ZEN4_GCC1220_ENVVAR]
def pre_prepare_hook_highway_handle_test_compilation_issues(self, *args, **kwargs):
"""
Solve issues with compiling or running the tests on both
neoverse_n1 and neoverse_v1 with Highway 1.0.4 and GCC 12.3.0:
- for neoverse_n1 we set optarch to GENERIC
- for neoverse_v1 and a64fx we completely disable the tests
cfr. https://github.com/EESSI/software-layer/issues/469
"""
if self.name == 'Highway':
tcname, tcversion = self.toolchain.name, self.toolchain.version
cpu_target = get_eessi_envvar('EESSI_SOFTWARE_SUBDIR')
# note: keep condition in sync with the one used in
# post_prepare_hook_highway_handle_test_compilation_issues
if self.version in ['1.0.4'] and tcname == 'GCCcore' and tcversion == '12.3.0':
if cpu_target in [CPU_TARGET_A64FX, CPU_TARGET_NEOVERSE_V1, CPU_TARGET_NVIDIA_GRACE]:
self.cfg.update('configopts', '-DHWY_ENABLE_TESTS=OFF')
if cpu_target == CPU_TARGET_NEOVERSE_N1:
self.orig_optarch = build_option('optarch')
update_build_option('optarch', OPTARCH_GENERIC)
else:
raise EasyBuildError("Highway-specific hook triggered for non-Highway easyconfig?!")
def post_prepare_hook_highway_handle_test_compilation_issues(self, *args, **kwargs):
"""
Post-prepare hook for Highway to reset optarch build option.
"""
if self.name == 'Highway':
tcname, tcversion = self.toolchain.name, self.toolchain.version
cpu_target = get_eessi_envvar('EESSI_SOFTWARE_SUBDIR')
# note: keep condition in sync with the one used in
# pre_prepare_hook_highway_handle_test_compilation_issues
if self.version in ['1.0.4'] and tcname == 'GCCcore' and tcversion == '12.3.0':
if cpu_target == CPU_TARGET_NEOVERSE_N1:
update_build_option('optarch', self.orig_optarch)
def pre_configure_hook(self, *args, **kwargs):
"""Main pre-configure hook: trigger custom functions based on software name."""
if self.name in PRE_CONFIGURE_HOOKS:
PRE_CONFIGURE_HOOKS[self.name](self, *args, **kwargs)
def pre_configure_hook_BLIS_a64fx(self, *args, **kwargs):
"""
Pre-configure hook for BLIS when building for A64FX:
- add -DCACHE_SECTOR_SIZE_READONLY to $CFLAGS for BLIS 0.9.0, cfr. https://github.com/flame/blis/issues/800
"""
if self.name == 'BLIS':
cpu_target = get_eessi_envvar('EESSI_SOFTWARE_SUBDIR')
if self.version == '0.9.0' and cpu_target == CPU_TARGET_A64FX:
# last argument of BLIS' configure command is configuration target (usually 'auto' for auto-detect),
# specifying of variables should be done before that
config_opts = self.cfg['configopts'].split(' ')
cflags_var = 'CFLAGS="$CFLAGS -DCACHE_SECTOR_SIZE_READONLY"'
config_target = config_opts[-1]
self.cfg['configopts'] = ' '.join(config_opts[:-1] + [cflags_var, config_target])
else:
raise EasyBuildError("BLIS-specific hook triggered for non-BLIS easyconfig?!")
def pre_configure_hook_score_p(self, *args, **kwargs):
"""
Pre-configure hook for Score-p
- specify correct path to binutils (in compat layer)
"""
if self.name == 'Score-P':
# determine path to Prefix installation in compat layer via $EPREFIX
eprefix = get_eessi_envvar('EPREFIX')
binutils_lib_path_glob_pattern = os.path.join(eprefix, 'usr', 'lib*', 'binutils', '*-linux-gnu', '2.*')
binutils_lib_path = glob.glob(binutils_lib_path_glob_pattern)
if len(binutils_lib_path) == 1:
self.cfg.update('configopts', '--with-libbfd-lib=' + binutils_lib_path[0])
self.cfg.update('configopts', '--with-libbfd-include=' + os.path.join(binutils_lib_path[0], 'include'))
else:
raise EasyBuildError("Failed to isolate path for binutils libraries using %s, got %s",
binutils_lib_path_glob_pattern, binutils_lib_path)
else:
raise EasyBuildError("Score-P-specific hook triggered for non-Score-P easyconfig?!")
def pre_configure_hook_extrae(self, *args, **kwargs):
"""
Pre-configure hook for Extrae
- avoid use of 'which' in configure script
- specify correct path to binutils/zlib (in compat layer)
"""
if self.name == 'Extrae':
# determine path to Prefix installation in compat layer via $EPREFIX
eprefix = get_eessi_envvar('EPREFIX')
binutils_lib_path_glob_pattern = os.path.join(eprefix, 'usr', 'lib*', 'binutils', '*-linux-gnu', '2.*')
binutils_lib_path = glob.glob(binutils_lib_path_glob_pattern)
if len(binutils_lib_path) == 1:
self.cfg.update('configopts', '--with-binutils=' + binutils_lib_path[0])
else:
raise EasyBuildError("Failed to isolate path for binutils libraries using %s, got %s",
binutils_lib_path_glob_pattern, binutils_lib_path)
# zlib is a filtered dependency, so we need to manually specify it's location to avoid the host version
self.cfg.update('configopts', '--with-libz=' + eprefix)
# replace use of 'which' with 'command -v', since 'which' is broken in EESSI build container;
# this must be done *after* running configure script, because initial configuration re-writes configure script,
# and problem due to use of which only pops up when running make ?!
self.cfg.update(
'prebuildopts',
"cp config/mpi-macros.m4 config/mpi-macros.m4.orig && "
"sed -i 's/`which /`command -v /g' config/mpi-macros.m4 && "
)
else:
raise EasyBuildError("Extrae-specific hook triggered for non-Extrae easyconfig?!")
def pre_configure_hook_gobject_introspection(self, *args, **kwargs):
"""
pre-configure hook for GObject-Introspection:
- prevent GObject-Introspection from setting $LD_LIBRARY_PATH if EasyBuild is configured to filter it, see:
https://github.com/EESSI/software-layer/issues/196
"""
if self.name == 'GObject-Introspection':
# inject a line that removes all items from runtime_path_envvar that are in $EASYBUILD_FILTER_ENVVARS
sed_cmd = r'sed -i "s@\(^\s*runtime_path_envvar = \)\(.*\)@'
sed_cmd += r'\1\2\n\1 [x for x in runtime_path_envvar if not x in os.environ.get(\'EASYBUILD_FILTER_ENV_VARS\', \'\').split(\',\')]@g"'
sed_cmd += ' %(start_dir)s/giscanner/ccompiler.py && '
self.cfg.update('preconfigopts', sed_cmd)
else:
raise EasyBuildError("GObject-Introspection-specific hook triggered for non-GObject-Introspection easyconfig?!")
def pre_configure_hook_gromacs(self, *args, **kwargs):
"""
Pre-configure hook for GROMACS:
- avoid building with SVE instructions on Neoverse V1 as workaround for failing tests,
see https://gitlab.com/gromacs/gromacs/-/issues/5057 + https://gitlab.com/eessi/support/-/issues/47
"""
if self.name == 'GROMACS':
cpu_target = get_eessi_envvar('EESSI_SOFTWARE_SUBDIR')
if LooseVersion(self.version) <= LooseVersion('2024.1') and cpu_target == CPU_TARGET_NEOVERSE_V1 or LooseVersion(self.version) <= LooseVersion('2024.4') and CPU_TARGET_NVIDIA_GRACE:
self.cfg.update('configopts', '-DGMX_SIMD=ARM_NEON_ASIMD')
print_msg(
"Avoiding use of SVE instructions for GROMACS %s by using ARM_NEON_ASIMD as GMX_SIMD value",
self.version
)
else:
raise EasyBuildError("GROMACS-specific hook triggered for non-GROMACS easyconfig?!")
def pre_configure_hook_openblas_optarch_generic(self, *args, **kwargs):
"""
Pre-configure hook for OpenBLAS: add DYNAMIC_ARCH=1 to build/test/install options when using --optarch=GENERIC
"""
# note: OpenBLAS easyblock was updated in https://github.com/easybuilders/easybuild-easyblocks/pull/3492
# to take care of this already, so at some point this hook can be removed...
if self.name == 'OpenBLAS':
if build_option('optarch') == OPTARCH_GENERIC:
dynamic_arch = 'DYNAMIC_ARCH=1'
for step in ('build', 'test', 'install'):
if dynamic_arch not in self.cfg[f'{step}opts']:
self.cfg.update(f'{step}opts', dynamic_arch)
if get_cpu_architecture() == AARCH64:
# when building for aarch64/generic, we also need to set TARGET=ARMV8 to make sure
# that the driver parts of OpenBLAS are compiled generically;
# see also https://github.com/OpenMathLib/OpenBLAS/issues/4945
target_armv8 = 'TARGET=ARMV8'
for step in ('build', 'test', 'install'):
if target_armv8 not in self.cfg[f'{step}opts']:
self.cfg.update(f'{step}opts', target_armv8)
# use -mtune=generic rather than -mcpu=generic in $CFLAGS for aarch64/generic,
# because -mcpu=generic implies a particular -march=armv* which clashes with those used by OpenBLAS
# when building with DYNAMIC_ARCH=1
mcpu_generic = '-mcpu=generic'
cflags = os.getenv('CFLAGS')
if mcpu_generic in cflags:
cflags = cflags.replace(mcpu_generic, '-mtune=generic')
self.log.info("Replaced -mcpu=generic with -mtune=generic in $CFLAGS")
env.setvar('CFLAGS', cflags)
else:
raise EasyBuildError("OpenBLAS-specific hook triggered for non-OpenBLAS easyconfig?!")
def pre_configure_hook_libfabric_disable_psm3_x86_64_generic(self, *args, **kwargs):
"""Add --disable-psm3 to libfabric configure options when building with --optarch=GENERIC on x86_64."""
if self.name == 'libfabric':
if get_cpu_architecture() == X86_64:
generic = build_option('optarch') == OPTARCH_GENERIC
no_avx = 'avx' not in get_cpu_features()
if generic or no_avx:
self.cfg.update('configopts', '--disable-psm3')
print_msg("Using custom configure options for %s: %s", self.name, self.cfg['configopts'])
else:
raise EasyBuildError("libfabric-specific hook triggered for non-libfabric easyconfig?!")
def pre_configure_hook_metabat_filtered_zlib_dep(self, *args, **kwargs):
"""
Pre-configure hook for MetaBAT:
- take into account that zlib is a filtered dependency,
and that there's no libz.a in the EESSI compat layer
"""
if self.name == 'MetaBAT':
configopts = self.cfg['configopts']
regex = re.compile(r"\$EBROOTZLIB/lib/libz.a")
self.cfg['configopts'] = regex.sub('$EPREFIX/usr/lib64/libz.so', configopts)
else:
raise EasyBuildError("MetaBAT-specific hook triggered for non-MetaBAT easyconfig?!")
def pre_configure_hook_wrf_aarch64(self, *args, **kwargs):
"""
Pre-configure hook for WRF:
- patch arch/configure_new.defaults so building WRF with foss toolchain works on aarch64
"""
if self.name == 'WRF':
if get_cpu_architecture() == AARCH64:
pattern = "Linux x86_64 ppc64le, gfortran"
repl = "Linux x86_64 aarch64 ppc64le, gfortran"
if LooseVersion(self.version) <= LooseVersion('3.9.0'):
self.cfg.update('preconfigopts', "sed -i 's/%s/%s/g' arch/configure_new.defaults && " % (pattern, repl))
print_msg("Using custom preconfigopts for %s: %s", self.name, self.cfg['preconfigopts'])
if LooseVersion('4.0.0') <= LooseVersion(self.version) <= LooseVersion('4.2.1'):
self.cfg.update('preconfigopts', "sed -i 's/%s/%s/g' arch/configure.defaults && " % (pattern, repl))
print_msg("Using custom preconfigopts for %s: %s", self.name, self.cfg['preconfigopts'])
else:
raise EasyBuildError("WRF-specific hook triggered for non-WRF easyconfig?!")
def pre_configure_hook_LAMMPS_zen4(self, *args, **kwargs):
"""
pre-configure hook for LAMMPS:
- set kokkos_arch on x86_64/amd/zen4
"""
cpu_target = get_eessi_envvar('EESSI_SOFTWARE_SUBDIR')
if self.name == 'LAMMPS':
if self.version in ('2Aug2023_update2', '2Aug2023_update4', '29Aug2024'):
if get_cpu_architecture() == X86_64:
if cpu_target == CPU_TARGET_ZEN4:
# There is no support for ZEN4 in LAMMPS yet so falling back to ZEN3
self.cfg['kokkos_arch'] = 'ZEN3'
else:
raise EasyBuildError("LAMMPS-specific hook triggered for non-LAMMPS easyconfig?!")
def pre_test_hook(self, *args, **kwargs):
"""Main pre-test hook: trigger custom functions based on software name."""
if self.name in PRE_TEST_HOOKS:
PRE_TEST_HOOKS[self.name](self, *args, **kwargs)
def pre_test_hook_exclude_failing_test_Highway(self, *args, **kwargs):
"""
Pre-test hook for Highway: exclude failing TestAllShiftRightLanes/SVE_256 test on neoverse_v1
cfr. https://github.com/EESSI/software-layer/issues/469
and exclude failing tests
HwyReductionTestGroup/HwyReductionTest.TestAllSumOfLanes/SVE2_128
HwyReductionTestGroup/HwyReductionTest.TestAllSumOfLanes/SVE2
HwyReductionTestGroup/HwyReductionTest.TestAllSumOfLanes/SVE
on nvidia/grace
"""
cpu_target = get_eessi_envvar('EESSI_SOFTWARE_SUBDIR')
if self.name == 'Highway' and self.version in ['1.0.3'] and cpu_target == CPU_TARGET_NEOVERSE_V1:
self.cfg['runtest'] += ' ARGS="-E TestAllShiftRightLanes/SVE_256"'
if self.name == 'Highway' and self.version in ['1.0.3'] and cpu_target == CPU_TARGET_NVIDIA_GRACE:
self.cfg['runtest'] += ' ARGS="-E TestAllSumOfLanes"'
def pre_test_hook_ignore_failing_tests_ESPResSo(self, *args, **kwargs):
"""
Pre-test hook for ESPResSo: skip failing tests, tests frequently timeout due to known bugs in ESPResSo v4.2.1
cfr. https://github.com/EESSI/software-layer/issues/363
"""
if self.name == 'ESPResSo' and self.version == '4.2.1':
self.cfg['testopts'] = "|| echo 'ignoring failing tests (probably due to timeouts)'"
def pre_test_hook_ignore_failing_tests_FFTWMPI(self, *args, **kwargs):
"""
Pre-test hook for FFTW.MPI: skip failing tests for FFTW.MPI 3.3.10 on neoverse_v1
cfr. https://github.com/EESSI/software-layer/issues/325
"""
cpu_target = get_eessi_envvar('EESSI_SOFTWARE_SUBDIR')
if self.name == 'FFTW.MPI' and self.version == '3.3.10' and cpu_target == CPU_TARGET_NEOVERSE_V1:
self.cfg['testopts'] = "|| echo ignoring failing tests"
def pre_test_hook_ignore_failing_tests_SciPybundle(self, *args, **kwargs):
"""
Pre-test hook for SciPy-bundle: skip failing tests for selected SciPy-bundle versions
In version 2021.10 on neoverse_v1, 2 failing tests in scipy 1.6.3:
FAILED optimize/tests/test_linprog.py::TestLinprogIPSparse::test_bug_6139 - A...
FAILED optimize/tests/test_linprog.py::TestLinprogIPSparsePresolve::test_bug_6139
= 2 failed, 30554 passed, 2064 skipped, 10992 deselected, 76 xfailed, 7 xpassed, 40 warnings in 380.27s (0:06:20) =
In versions 2023.02 + 2023.07 + 2023.11 on neoverse_v1, 2 failing tests in scipy (versions 1.10.1, 1.11.1, 1.11.4):
FAILED scipy/spatial/tests/test_distance.py::TestPdist::test_pdist_correlation_iris
FAILED scipy/spatial/tests/test_distance.py::TestPdist::test_pdist_correlation_iris_float32
= 2 failed, 54409 passed, 3016 skipped, 223 xfailed, 13 xpassed, 10917 warnings in 892.04s (0:14:52) =
In version 2023.07 on a64fx, 4 failing tests in scipy 1.11.1:
FAILED scipy/optimize/tests/test_linprog.py::TestLinprogIPSparse::test_bug_6139
FAILED scipy/optimize/tests/test_linprog.py::TestLinprogIPSparsePresolve::test_bug_6139
FAILED scipy/spatial/tests/test_distance.py::TestPdist::test_pdist_correlation_iris
FAILED scipy/spatial/tests/test_distance.py::TestPdist::test_pdist_correlation_iris_float32
= 4 failed, 54407 passed, 3016 skipped, 223 xfailed, 13 xpassed, 10917 warnings in 6068.43s (1:41:08) =
In version 2023.07 + 2023.11 on grace, 2 failing tests in scipy (versions 1.11.1, 1.11.4):
FAILED scipy/optimize/tests/test_linprog.py::TestLinprogIPSparse::test_bug_6139
FAILED scipy/optimize/tests/test_linprog.py::TestLinprogIPSparsePresolve::test_bug_6139
= 2 failed, 54876 passed, 3021 skipped, 223 xfailed, 13 xpassed in 581.85s (0:09:41) =
In version 2023.02 on grace, 46 failing tests in scipy (versions 1.10.1):
FAILED ../../linalg/tests/test_basic.py::TestOverwrite::test_pinv - RuntimeWa...
FAILED ../../linalg/tests/test_basic.py::TestOverwrite::test_pinvh - RuntimeW...
FAILED ../../linalg/tests/test_matfuncs.py::TestExpM::test_2x2_input - Runtim...
FAILED ../../optimize/tests/test_linprog.py::TestLinprogIPSparse::test_bug_6139
FAILED ../../optimize/tests/test_linprog.py::TestLinprogIPSparsePresolve::test_bug_6139
FAILED ../../optimize/tests/test_zeros.py::test_gh_9608_preserve_array_shape
FAILED ../../sparse/csgraph/tests/test_graph_laplacian.py::test_asymmetric_laplacian[True-True-True-coo_matrix-float32]
FAILED ../../sparse/csgraph/tests/test_graph_laplacian.py::test_asymmetric_laplacian[True-True-False-array-float32]
FAILED ../../sparse/csgraph/tests/test_graph_laplacian.py::test_asymmetric_laplacian[True-True-False-csr_matrix-float32]
FAILED ../../sparse/csgraph/tests/test_graph_laplacian.py::test_asymmetric_laplacian[True-True-False-coo_matrix-float32]
FAILED ../../sparse/csgraph/tests/test_graph_laplacian.py::test_asymmetric_laplacian[False-True-True-array-float32]
FAILED ../../sparse/csgraph/tests/test_graph_laplacian.py::test_asymmetric_laplacian[False-True-True-csr_matrix-float32]
FAILED ../../sparse/csgraph/tests/test_graph_laplacian.py::test_asymmetric_laplacian[False-True-True-coo_matrix-float32]
FAILED ../../sparse/csgraph/tests/test_graph_laplacian.py::test_asymmetric_laplacian[True-True-True-array-float32]
FAILED ../../sparse/csgraph/tests/test_graph_laplacian.py::test_format[function-True-False-True-float32-asarray]
FAILED ../../sparse/csgraph/tests/test_graph_laplacian.py::test_asymmetric_laplacian[False-True-False-array-float32]
FAILED ../../sparse/csgraph/tests/test_graph_laplacian.py::test_asymmetric_laplacian[True-True-True-csr_matrix-float32]
FAILED ../../sparse/csgraph/tests/test_graph_laplacian.py::test_format[function-True-False-True-float32-csr_matrix]
FAILED ../../sparse/csgraph/tests/test_graph_laplacian.py::test_format[function-True-True-True-float32-asarray]
FAILED ../../sparse/csgraph/tests/test_graph_laplacian.py::test_format[function-True-True-True-float32-csr_matrix]
FAILED ../../sparse/csgraph/tests/test_graph_laplacian.py::test_format[function-True-False-True-float32-coo_matrix]
FAILED ../../sparse/csgraph/tests/test_graph_laplacian.py::test_asymmetric_laplacian[False-True-False-csr_matrix-float32]
FAILED ../../sparse/csgraph/tests/test_graph_laplacian.py::test_format[function-True-True-True-float32-coo_matrix]
FAILED ../../sparse/csgraph/tests/test_graph_laplacian.py::test_format[lo-True-False-True-float32-asarray]
FAILED ../../sparse/csgraph/tests/test_graph_laplacian.py::test_format[function-False-False-True-float32-asarray]
FAILED ../../sparse/csgraph/tests/test_graph_laplacian.py::test_format[function-False-False-True-float32-csr_matrix]
FAILED ../../sparse/csgraph/tests/test_graph_laplacian.py::test_format[function-False-False-True-float32-coo_matrix]
FAILED ../../sparse/csgraph/tests/test_graph_laplacian.py::test_asymmetric_laplacian[False-True-False-coo_matrix-float32]
FAILED ../../sparse/csgraph/tests/test_graph_laplacian.py::test_format[lo-True-False-True-float32-csr_matrix]
FAILED ../../sparse/csgraph/tests/test_graph_laplacian.py::test_format[lo-True-False-True-float32-coo_matrix]
FAILED ../../sparse/linalg/_eigen/lobpcg/tests/test_lobpcg.py::test_tolerance_float32
FAILED ../../sparse/csgraph/tests/test_graph_laplacian.py::test_format[lo-True-True-True-float32-asarray]
FAILED ../../sparse/csgraph/tests/test_graph_laplacian.py::test_format[lo-False-False-True-float32-asarray]
FAILED ../../sparse/csgraph/tests/test_graph_laplacian.py::test_format[lo-False-False-True-float32-csr_matrix]
FAILED ../../sparse/csgraph/tests/test_graph_laplacian.py::test_format[lo-False-False-True-float32-coo_matrix]
FAILED ../../sparse/csgraph/tests/test_graph_laplacian.py::test_format[lo-True-True-True-float32-csr_matrix]
FAILED ../../sparse/csgraph/tests/test_graph_laplacian.py::test_format[lo-True-True-True-float32-coo_matrix]
FAILED ../../sparse/linalg/_eigen/lobpcg/tests/test_lobpcg.py::test_random_initial_float32
FAILED ../../sparse/csgraph/tests/test_graph_laplacian.py::test_format[function-False-True-True-float32-asarray]
FAILED ../../sparse/csgraph/tests/test_graph_laplacian.py::test_format[function-False-True-True-float32-csr_matrix]
FAILED ../../sparse/csgraph/tests/test_graph_laplacian.py::test_format[function-False-True-True-float32-coo_matrix]
FAILED ../../sparse/csgraph/tests/test_graph_laplacian.py::test_format[lo-False-True-True-float32-asarray]
FAILED ../../sparse/csgraph/tests/test_graph_laplacian.py::test_format[lo-False-True-True-float32-csr_matrix]
FAILED ../../sparse/csgraph/tests/test_graph_laplacian.py::test_format[lo-False-True-True-float32-coo_matrix]
FAILED ../../sparse/linalg/_isolve/tests/test_iterative.py::test_precond_dummy
FAILED ../../sparse/linalg/_eigen/arpack/tests/test_arpack.py::test_symmetric_modes
= 46 failed, 49971 passed, 2471 skipped, 231 xfailed, 11 xpassed in 65.91s (0:01:05) =
(in previous versions we were not as strict yet on the numpy/SciPy tests)
"""
cpu_target = get_eessi_envvar('EESSI_SOFTWARE_SUBDIR')
scipy_bundle_versions_nv1 = ('2021.10', '2023.02', '2023.07', '2023.11')
scipy_bundle_versions_a64fx = ('2023.07', '2023.11')
scipy_bundle_versions_nvidia_grace = ('2023.02', '2023.07', '2023.11')
if self.name == 'SciPy-bundle':
if cpu_target == CPU_TARGET_NEOVERSE_V1 and self.version in scipy_bundle_versions_nv1:
self.cfg['testopts'] = "|| echo ignoring failing tests"
elif cpu_target == CPU_TARGET_A64FX and self.version in scipy_bundle_versions_a64fx:
self.cfg['testopts'] = "|| echo ignoring failing tests"
elif cpu_target == CPU_TARGET_NVIDIA_GRACE and self.version in scipy_bundle_versions_nvidia_grace:
self.cfg['testopts'] = "|| echo ignoring failing tests"
def pre_test_hook_ignore_failing_tests_netCDF(self, *args, **kwargs):
"""
Pre-test hook for netCDF: skip failing tests for selected netCDF versions on neoverse_v1
cfr. https://github.com/EESSI/software-layer/issues/425
The following tests are problematic:
163 - nc_test4_run_par_test (Timeout)
190 - h5_test_run_par_tests (Timeout)
A few other tests are skipped in the easyconfig and patches for similar issues, see above issue for details.
"""
cpu_target = get_eessi_envvar('EESSI_SOFTWARE_SUBDIR')
if self.name == 'netCDF' and self.version == '4.9.2' and cpu_target == CPU_TARGET_NEOVERSE_V1:
self.cfg['testopts'] = "|| echo ignoring failing tests"
def pre_test_hook_increase_max_failed_tests_arm_PyTorch(self, *args, **kwargs):
"""
Pre-test hook for PyTorch: increase max failing tests for ARM and Intel Sapphire Rapids for PyTorch 2.1.2
See https://github.com/EESSI/software-layer/pull/444#issuecomment-1890416171 and
https://github.com/EESSI/software-layer/pull/875#issuecomment-2606854400
"""
cpu_target = get_eessi_envvar('EESSI_SOFTWARE_SUBDIR')
if self.name == 'PyTorch' and self.version == '2.1.2':
if get_cpu_architecture() == AARCH64:
self.cfg['max_failed_tests'] = 10
if cpu_target == CPU_TARGET_SAPPHIRE_RAPIDS:
self.cfg['max_failed_tests'] = 4
def pre_single_extension_hook(ext, *args, **kwargs):
"""Main pre-extension: trigger custom functions based on software name."""
if ext.name in PRE_SINGLE_EXTENSION_HOOKS:
PRE_SINGLE_EXTENSION_HOOKS[ext.name](ext, *args, **kwargs)
def post_single_extension_hook(ext, *args, **kwargs):
"""Main post-extension hook: trigger custom functions based on software name."""
if ext.name in POST_SINGLE_EXTENSION_HOOKS:
POST_SINGLE_EXTENSION_HOOKS[ext.name](ext, *args, **kwargs)
def pre_single_extension_isoband(ext, *args, **kwargs):
"""
Pre-extension hook for isoband R package, to fix build on top of recent glibc.
"""
if ext.name == 'isoband' and LooseVersion(ext.version) < LooseVersion('0.2.5'):
# use constant value instead of SIGSTKSZ for stack size in vendored testthat included in isoband sources,
# cfr. https://github.com/r-lib/isoband/commit/6984e6ce8d977f06e0b5ff73f5d88e5c9a44c027
ext.cfg['preinstallopts'] = "sed -i 's/SIGSTKSZ/32768/g' src/testthat/vendor/catch.h && "
def pre_single_extension_numpy(ext, *args, **kwargs):
"""
Pre-extension hook for numpy, to change -march=native to -march=armv8.4-a for numpy 1.24.2
when building for aarch64/neoverse_v1 CPU target.
"""
cpu_target = get_eessi_envvar('EESSI_SOFTWARE_SUBDIR')
if ext.name == 'numpy' and ext.version == '1.24.2' and cpu_target == CPU_TARGET_NEOVERSE_V1:
# note: this hook is called before build environment is set up (by calling toolchain.prepare()),
# so environment variables like $CFLAGS are not defined yet
# unsure which of these actually matter for numpy, so changing all of them
ext.orig_optarch = build_option('optarch')
update_build_option('optarch', 'march=armv8.4-a')
def post_single_extension_numpy(ext, *args, **kwargs):
"""
Post-extension hook for numpy, to reset 'optarch' build option.
"""
cpu_target = get_eessi_envvar('EESSI_SOFTWARE_SUBDIR')
if ext.name == 'numpy' and ext.version == '1.24.2' and cpu_target == CPU_TARGET_NEOVERSE_V1:
update_build_option('optarch', ext.orig_optarch)
def pre_single_extension_testthat(ext, *args, **kwargs):
"""
Pre-extension hook for testthat R package, to fix build on top of recent glibc.
"""
if ext.name == 'testthat' and LooseVersion(ext.version) < LooseVersion('3.1.0'):
# use constant value instead of SIGSTKSZ for stack size,
# cfr. https://github.com/r-lib/testthat/issues/1373 + https://github.com/r-lib/testthat/pull/1403
ext.cfg['preinstallopts'] = "sed -i 's/SIGSTKSZ/32768/g' inst/include/testthat/vendor/catch.h && "
def post_postproc_hook(self, *args, **kwargs):
"""Main post-postprocessing hook: trigger custom functions based on software name."""
if self.name in POST_POSTPROC_HOOKS:
POST_POSTPROC_HOOKS[self.name](self, *args, **kwargs)
def post_postproc_cuda(self, *args, **kwargs):
"""
Remove files from CUDA installation that we are not allowed to ship,
and replace them with a symlink to a corresponding installation under host_injections.
"""
# We need to check if we are doing an EESSI-distributed installation
eessi_installation = bool(re.search(EESSI_INSTALLATION_REGEX, self.installdir))
if self.name == 'CUDA' and eessi_installation:
print_msg("Replacing files in CUDA installation that we can not ship with symlinks to host_injections...")
# read CUDA EULA, construct allowlist based on section 2.6 that specifies list of files that can be shipped
eula_path = os.path.join(self.installdir, 'EULA.txt')
relevant_eula_lines = []
with open(eula_path) as infile:
copy = False
for line in infile:
if line.strip() == "2.6. Attachment A":
copy = True
continue
elif line.strip() == "2.7. Attachment B":
copy = False
continue
elif copy:
relevant_eula_lines.append(line)
# create list without file extensions, they're not really needed and they only complicate things
allowlist = ['EULA', 'README']
file_extensions = ['.so', '.a', '.h', '.bc']
for line in relevant_eula_lines:
for word in line.split():
if any(ext in word for ext in file_extensions):
allowlist.append(os.path.splitext(word)[0])
# The EULA of CUDA 12.4 introduced a typo (confirmed by NVIDIA):
# libnvrtx-builtins_static.so should be libnvrtc-builtins_static.so
if 'libnvrtx-builtins_static' in allowlist:
allowlist.remove('libnvrtx-builtins_static')
allowlist.append('libnvrtc-builtins_static')
allowlist = sorted(set(allowlist))
self.log.info("Allowlist for files in CUDA installation that can be redistributed: " + ', '.join(allowlist))
# Do some quick sanity checks for things we should or shouldn't have in the list
if 'nvcc' in allowlist: