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# Copyright 1999-2024 Gentoo Authors
# Distributed under the terms of the GNU General Public License v2
EAPI=8
PYTHON_COMPAT=( python3_{10..11} pypy3 )
inherit flag-o-matic fortran-2 python-any-r1 toolchain-funcs
DESCRIPTION="Portable, Extensible Toolkit for Scientific Computation"
HOMEPAGE="https://www.mcs.anl.gov/petsc"
SRC_URI="http://ftp.mcs.anl.gov/pub/petsc/release-snapshots/${P}.tar.gz"
LICENSE="BSD-2"
SLOT="0"
KEYWORDS="~amd64 ~x86"
IUSE="afterimage boost complex-scalars debug +examples fftw
fortran hdf5 hypre int64 mpi metis mumps scotch superlu threads X"
# readd sparse when suitesparse-5.6.0 is in tree
# sparse? ( >=sci-libs/suitesparse-5.6.0 >=sci-libs/cholmod-1.7.0 )
# $(use_with sparse suitesparse) \
RDEPEND="
virtual/blas
virtual/lapack
afterimage? ( media-libs/libafterimage )
boost? ( dev-libs/boost )
fftw? ( sci-libs/fftw:3.0[mpi?] )
hdf5? ( sci-libs/hdf5:=[mpi?] )
hypre? ( >=sci-libs/hypre-2.18.0[int64?,mpi?] )
metis? ( >=sci-libs/parmetis-4 )
mpi? ( virtual/mpi[fortran?] )
mumps? ( sci-libs/mumps[mpi?] sci-libs/scalapack )
scotch? ( sci-libs/scotch[int64?,mpi?] )
superlu? ( >=sci-libs/superlu-5 )
X? ( x11-libs/libX11 )
"
DEPEND="
${RDEPEND}
${PYTHON_DEPS}
"
BDEPEND="
dev-build/cmake
virtual/pkgconfig
"
# hypre and superlu curretly exclude each other due to missing linking to hypre
# if both are enabled
REQUIRED_USE="
afterimage? ( X )
complex-scalars? ( !hypre !superlu )
fftw? ( mpi )
hdf5? ( mpi )
hypre? ( mpi !superlu )
mumps? ( mpi scotch )
scotch? ( mpi )
superlu? ( !hypre )
"
PATCHES=(
"${FILESDIR}/${PN}-3.7.0-disable-rpath.patch"
"${FILESDIR}"/${PN}-3.16.0-fix_sandbox_violation.patch
)
# petsc uses --with-blah=1 and --with-blah=0 to en/disable options
petsc_enable() {
use "$1" && echo "--with-${2:-$1}=1" || echo "--with-${2:-$1}=0"
}
# add external library:
# petsc_with use_flag libname libdir
# petsc_with use_flag libname include linking_libs
petsc_with() {
local myuse p=${2:-${1}}
if use ${1}; then
myuse="--with-${p}=1"
if [[ $# -ge 4 ]]; then
myuse="${myuse} --with-${p}-include=${EPREFIX}${3}"
shift 3
myuse="${myuse} --with-${p}-lib=$@"
else
myuse="${myuse} --with-${p}-dir=${EPREFIX}${3:-/usr}"
fi
else
myuse="--with-${p}=0"
fi
echo ${myuse}
}
# select between configure options depending on use flag
petsc_select() {
use "$1" && echo "--with-$2=$3" || echo "--with-$2=$4"
}
src_configure() {
# -Werror=lto-type-mismatch
# https://bugs.gentoo.org/863260
# https://gitlab.com/petsc/petsc/-/issues/1560
filter-lto
# bug 548498
# PETSc runs mpi processes during configure that result in a sandbox
# violation by trying to open /proc/mtrr rw. This is not easy to
# mitigate because it happens in libpciaccess.so called by libhwloc.so,
# which is used by libmpi.so.
addpredict /proc/mtrr
# if mpi is built with knem support it needs /dev/knem too
addpredict /dev/knem
# configureMPITypes with openmpi-2* insists on accessing the scaling
# governor rw.
addpredict /sys/devices/system/cpu/
# bug 771711
# configureMPIEXEC and configureMPITypes access /dev/nvidiactl
addpredict /dev/nvidiactl
# bug 810841
addpredict /dev/kfd
local myopt
use debug && myopt="debug" || myopt="opt"
# environmental variables expected by petsc during build
export PETSC_DIR="${S}"
export PETSC_ARCH="linux-gnu-c-${myopt}"
if use debug; then
strip-flags
filter-flags -O*
fi
tc-export AR RANLIB
# C Support on CXX builds is enabled if possible i.e. when not using
# complex scalars (no complex type for both available at the same time)
econf \
scrollOutput=1 \
AR="${AR}" \
CFLAGS="${CFLAGS} -fPIC" \
CPPFLAGS="${CPPFLAGS}" \
CXXFLAGS="${CXXFLAGS} -fPIC" \
CXXOPTFLAGS="${CXXFLAGS} -fPIC" \
FCFLAGS="${FCFLAGS} -fPIC" \
FFLAGS="${FFLAGS} -fPIC" \
LDFLAGS="${LDFLAGS}" \
MAKEFLAGS="${MAKEFLAGS}" \
RANLIB="${RANLIB}" \
--prefix="${EPREFIX}/usr/$(get_libdir)/petscdir/" \
--with-blas-lapack-lib="$($(tc-getPKG_CONFIG) --libs blas lapack)" \
--with-cmake:BOOL=1 \
--with-gnu-compilers \
--with-imagemagick=0 \
--with-petsc-arch="${PETSC_ARCH}" \
--with-precision=double \
--with-python=0 \
--with-shared-libraries \
--with-single-library \
--with-windows-graphics=0 \
$(petsc_enable debug debugging) \
$(petsc_enable fortran) \
$(petsc_enable mpi) \
$(petsc_enable mpi mpi-compilers) \
$(petsc_enable threads pthread) \
$(petsc_select complex-scalars scalar-type complex real) \
$(petsc_select mpi cc mpicc $(tc-getCC)) \
$(petsc_select mpi cxx mpicxx $(tc-getCXX)) \
$(petsc_with afterimage afterimage /usr/include/libAfterImage -lAfterImage) \
$(petsc_with hypre hypre /usr/include/hypre -lHYPRE) \
$(petsc_with superlu superlu /usr/include/superlu -lsuperlu) \
$(petsc_with scotch ptscotch /usr/include/scotch [-lptesmumps,-lptscotch,-lptscotcherr,-lscotch,-lscotcherr]) \
$(petsc_with mumps scalapack /usr/include/scalapack -lscalapack) \
$(petsc_with mumps mumps /usr/include [-lcmumps,-ldmumps,-lsmumps,-lzmumps,-lmumps_common,-lpord]) \
$(use fortran && echo "$(petsc_select mpi fc mpif77 $(tc-getF77))") \
$(use int64 && echo "--with-index-size=64") \
$(use_with boost) \
$(use_with fftw) \
$(use_with hdf5) \
$(use_with X x) \
$(use_with X x11)
}
src_install() {
emake DESTDIR="${ED}" install
#
# Clean up the mess:
#
# put all include directories under a proper subdirectory
mkdir "${ED}"/usr/include || die "mkdir failed (include)"
mv "${ED}"/usr/{$(get_libdir)/petscdir/include,include/petsc} || die "mv failed (include)"
# put libraries and pkconfig file into proper place
mv "${ED}"/usr/$(get_libdir)/petscdir/lib/{libpetsc*,pkgconfig} \
"${ED}/usr/$(get_libdir)" || die "mv failed (lib)"
# move share to proper location
mv "${ED}"/usr/{$(get_libdir)/petscdir/share,share} || die "mv failed (share)"
# fix pc files:
sed -i \
-e 's#include$#include/petsc#' \
-e "s#lib\$#$(get_libdir)#" \
-e "s#^prefix=.*petscdir\$#prefix=${EPREFIX}/usr#" \
"${ED}"/usr/$(get_libdir)/pkgconfig/*.pc || die "sed failed (pkgconfig)"
# recreate a "valid" petscdir:
for i in "${ED}"/usr/$(get_libdir)/*; do
[ $(basename $i) = petscdir ] && continue
ln -s "${EPREFIX}/usr/$(get_libdir)/$(basename $i)" \
"${ED}/usr/$(get_libdir)/petscdir/lib/$(basename $i)" || die "ln failed (petscdir)"
done
ln -s "${EPREFIX}"/usr/include/petsc/ \
"${ED}/usr/$(get_libdir)/petscdir/include" || die "ln failed (petscdir)"
mkdir "${ED}/usr/$(get_libdir)/petscdir/share" || die "mkdir fialed (petscdir)"
ln -s "${EPREFIX}"/usr/share/petsc/ \
"${ED}/usr/$(get_libdir)/petscdir/share/petsc" || die "ln failed (petscdir)"
# automatically symlink petsc matlab modules:
mkdir -p "${ED}"/usr/share/octave/site/m/
ln -s "${EPREFIX}"/usr/share/petsc/matlab "${ED}"/usr/share/octave/site/m/petsc || die "ln failed (matlab)"
if use examples; then
mkdir -p "${ED}"/usr/share/doc/${PF} || die "mkdir failed (examples)"
mv "${ED}"/usr/share/petsc/examples "${ED}"/usr/share/doc/${PF} || die "mv failed (examples)"
ln -s "${EPREFIX}"/usr/share/doc/${PF}/examples "${ED}"/usr/share/petsc/examples || die "ln failed (examples)"
docompress -x /usr/share/doc/${PF}/examples
else
rm -r "${ED}"/usr/share/petsc/examples || die "rm failed (examples)"
fi
# add PETSC_DIR to environmental variables
cat >> 99petsc <<- EOF
PETSC_DIR=${EPREFIX}/usr/$(get_libdir)/petscdir
EOF
doenvd 99petsc
}
|
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