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fix specifying path to SuiteSparse header files and libraries in numpy, Trilinos, PETSc easyblocks #3056

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merged 3 commits into from
Dec 29, 2023
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fix specifying path to SuiteSparse header files and libraries in numpy, Trilinos, PETSc easyblocks #3056

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0db52c7
Fix suitesparse path
appolloford Dec 18, 2023
d3e9e53
Remove commented line and fix linting
appolloford Dec 18, 2023
66e2ba8
import LooseVersion from easybuild.tools in PETSc + Trilinos easyblocks
boegel Dec 29, 2023
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26 changes: 10 additions & 16 deletions easybuild/easyblocks/n/numpy.py
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Original file line number Diff line number Diff line change
Expand Up @@ -183,23 +183,17 @@ def get_libs_for_mkl(varname):

suitesparseroot = get_software_root('SuiteSparse')
if suitesparseroot:
amddir = os.path.join(suitesparseroot, 'AMD')
umfpackdir = os.path.join(suitesparseroot, 'UMFPACK')

if not os.path.exists(amddir) or not os.path.exists(umfpackdir):
raise EasyBuildError("Expected SuiteSparse subdirectories are not both there: %s, %s",
amddir, umfpackdir)
else:
extrasiteconfig += '\n'.join([
"[amd]",
"library_dirs = %s" % os.path.join(amddir, 'Lib'),
"include_dirs = %s" % os.path.join(amddir, 'Include'),
"amd_libs = amd",
"[umfpack]",
"library_dirs = %s" % os.path.join(umfpackdir, 'Lib'),
"include_dirs = %s" % os.path.join(umfpackdir, 'Include'),
"umfpack_libs = umfpack",
])
extrasiteconfig += '\n'.join([
"[amd]",
"library_dirs = %s" % os.path.join(suitesparseroot, 'lib'),
"include_dirs = %s" % os.path.join(suitesparseroot, 'include'),
"amd_libs = amd",
"[umfpack]",
"library_dirs = %s" % os.path.join(suitesparseroot, 'lib'),
"include_dirs = %s" % os.path.join(suitesparseroot, 'include'),
"umfpack_libs = umfpack",
])

self.sitecfg = '\n'.join([self.sitecfg, extrasiteconfig])

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19 changes: 7 additions & 12 deletions easybuild/easyblocks/p/petsc.py
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Original file line number Diff line number Diff line change
Expand Up @@ -29,12 +29,12 @@
"""
import os
import re
from easybuild.tools import LooseVersion

import easybuild.tools.environment as env
import easybuild.tools.toolchain as toolchain
from easybuild.easyblocks.generic.configuremake import ConfigureMake
from easybuild.framework.easyconfig import BUILD, CUSTOM
from easybuild.tools import LooseVersion
from easybuild.tools.build_log import EasyBuildError
from easybuild.tools.filetools import symlink, apply_regex_substitutions
from easybuild.tools.modules import get_software_root, get_software_version
Expand Down Expand Up @@ -254,26 +254,21 @@ def configure_step(self):
ss_libs = ["UMFPACK", "KLU", "CHOLMOD", "BTF", "CCOLAMD", "COLAMD", "CAMD", "AMD"]
# More libraries added after version 3.17
if LooseVersion(self.version) >= LooseVersion("3.17"):
# specified order of libs matters!
ss_libs = ["UMFPACK", "KLU", "SPQR", "CHOLMOD", "BTF", "CCOLAMD",
"COLAMD", "CSparse", "CXSparse", "LDL", "RBio",
"SLIP_LU", "CAMD", "AMD"]
"COLAMD", "CXSparse", "LDL", "RBio", "SLIP_LU", "CAMD", "AMD"]

suitesparse_inc = [os.path.join(suitesparse, x, "Include")
for x in ss_libs]
suitesparse_inc.append(os.path.join(suitesparse, "SuiteSparse_config"))
inc_spec = "-include=[%s]" % ','.join(suitesparse_inc)
suitesparse_inc = os.path.join(suitesparse, "include")
inc_spec = "-include=[%s]" % suitesparse_inc

suitesparse_libs = [os.path.join(suitesparse, x, "Lib", "lib%s.a" % x.replace("_", "").lower())
suitesparse_libs = [os.path.join(suitesparse, "lib", "lib%s.so" % x.replace("_", "").lower())
for x in ss_libs]
suitesparse_libs.append(os.path.join(suitesparse, "SuiteSparse_config", "libsuitesparseconfig.a"))
lib_spec = "-lib=[%s]" % ','.join(suitesparse_libs)
else:
# CHOLMOD and UMFPACK are part of SuiteSparse (PETSc < 3.5)
withdep = "--with-umfpack"
inc_spec = "-include=%s" % os.path.join(suitesparse, "UMFPACK", "Include")
inc_spec = "-include=%s" % os.path.join(suitesparse, "include")
# specified order of libs matters!
umfpack_libs = [os.path.join(suitesparse, x, "Lib", "lib%s.a" % x.lower())
umfpack_libs = [os.path.join(suitesparse, "lib", "lib%s.a" % x.lower())
for x in ["UMFPACK", "CHOLMOD", "COLAMD", "AMD"]]
lib_spec = "-lib=[%s]" % ','.join(umfpack_libs)

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21 changes: 9 additions & 12 deletions easybuild/easyblocks/t/trilinos.py
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Original file line number Diff line number Diff line change
Expand Up @@ -31,11 +31,10 @@
import random
import re

from easybuild.tools import LooseVersion

import easybuild.tools.toolchain as toolchain
from easybuild.easyblocks.generic.cmakemake import CMakeMake
from easybuild.framework.easyconfig import CUSTOM
from easybuild.tools import LooseVersion
from easybuild.tools.build_log import EasyBuildError
from easybuild.tools.config import build_path
from easybuild.tools.filetools import mkdir, remove_dir, symlink
Expand Down Expand Up @@ -144,14 +143,12 @@ def configure_step(self):
if suitesparse:
self.cfg.update('configopts', "-DTPL_ENABLE_UMFPACK:BOOL=ON")
self.cfg.update('configopts', "-DTPL_ENABLE_Cholmod:BOOL=ON")
incdirs, libdirs, libnames = [], [], []
for lib in ["UMFPACK", "CHOLMOD", "COLAMD", "AMD", "CCOLAMD", "CAMD"]:
incdirs.append(os.path.join(suitesparse, lib, "Include"))
libdirs.append(os.path.join(suitesparse, lib, "Lib"))
libnames.append(lib.lower())
incdir = os.path.join(suitesparse, "include")
libdir = os.path.join(suitesparse, "lib")
libs = ["UMFPACK", "CHOLMOD", "COLAMD", "AMD", "CCOLAMD", "CAMD"]
libnames = [lib.lower() for lib in libs]

# add SuiteSparse config lib, it is in recent versions of suitesparse
libdirs.append(os.path.join(suitesparse, 'SuiteSparse_config'))
libnames.append('suitesparseconfig')
# because of "SuiteSparse_config.c:function SuiteSparse_tic: error: undefined reference to 'clock_gettime'"
libnames.append('rt')
Expand All @@ -162,11 +159,11 @@ def configure_step(self):
# see https://answers.launchpad.net/dorsal/+question/223167
libnames.append('libmetis.a')

self.cfg.update('configopts', '-DUMFPACK_INCLUDE_DIRS:PATH="%s"' % ';'.join(incdirs))
self.cfg.update('configopts', '-DUMFPACK_LIBRARY_DIRS:PATH="%s"' % ';'.join(libdirs))
self.cfg.update('configopts', '-DUMFPACK_INCLUDE_DIRS:PATH="%s"' % incdir)
self.cfg.update('configopts', '-DUMFPACK_LIBRARY_DIRS:PATH="%s"' % libdir)
self.cfg.update('configopts', '-DUMFPACK_LIBRARY_NAMES:STRING="%s"' % ';'.join(libnames))
self.cfg.update('configopts', '-DCholmod_INCLUDE_DIRS:PATH="%s"' % ';'.join(incdirs))
self.cfg.update('configopts', '-DCholmod_LIBRARY_DIRS:PATH="%s"' % ';'.join(libdirs))
self.cfg.update('configopts', '-DCholmod_INCLUDE_DIRS:PATH="%s"' % incdir)
self.cfg.update('configopts', '-DCholmod_LIBRARY_DIRS:PATH="%s"' % libdir)
self.cfg.update('configopts', '-DCholmod_LIBRARY_NAMES:STRING="%s"' % ';'.join(libnames))

# BLACS
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