Hi!
The compilation with v1.5.1 worked. I attach my PKGBUILD in case that
it's useful (should be self-explanatory even for other flavours of
Linux).
I'm having trouble with building the documentation, but I'll get to
that.
By the way, it was a pain to subscribe to the mailing list (due to
source-forge and cloudfront).
On 2019-12-18 20:02, Stogner, Roy H wrote:
Are you building on top of libMesh alone, or on top of middleware that
requires a very recent libMesh git version?
If the former, I'd suggest trying the libMesh 1.5.1 release, which
doesn't include the refactoring that's breaking on your system.
If the latter, you might try an out-of-source build?
# e.g.:
mkdir my_build_dir
cd my_build_dir
../configure --prefix=/usr --enable-petsc PETSC_DIR="$petsc_dir"
I do think I see what's breaking, except that if I'm right I can't
believe nobody else triggered such an embarrassing bug yet. If I can
replicate the problem I'll fix it ASAP; if not then I'd appreciate
your help later verifying whether or not a potential fix works.
Thanks for the report,
---
Roy
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pkgname=libmesh-petsc
realname=libmesh
pkgrel=1
pkgver=v1.5.1.r0.g2469f07a2
pkgdesc="A C++ Finite Element Library"
arch=("x86_64")
url="http://libmesh.github.io/";
license=('LGPL')
provides=($realname)
conflicts=($realname)
depends=('eigen' 'hdf5' 'boost-libs' 'intel-tbb' 'vtk' 'glpk' 'netcdf' 'nlopt'
"petsc" "hypre" "openmpi" "metis")
makedepends=('bison')
# From tar.bz2
#
source=("https://github.com/libMesh/libmesh/releases/download/v${pkgver}/libmesh-${pkgver}.tar.bz2";)
#
sha256sums=('638cf30d05c249315760f16cbae4804964db8857a04d5e640f37617bef17ab0f')
source=(
"${realname}::git+https://github.com/libMesh/libmesh";
)
md5sums=('SKIP')
pkgver() {
cd $realname
git describe --long --tags | sed 's/\([^-]*-g\)/r\1/;s/-/./g'
}
prepare() {
# ln -s "${srcdir}/metaphysicl" "${srcdir}/${realname}/contrib/"
cd "${srcdir}/${realname}"
sed -i 's-=[[:space:]]*../../-=https://github.com/-g' .gitmodules
git submodule sync --recursive
git submodule update --init
# By recommendation from Roy Stogner
git checkout v1.5.1
}
build() {
cd "${srcdir}/${realname}"
petsc_h=$(pacman -Ql petsc | grep -m 1 petsc.h | sed 's-^[[:alpha:]-]* --g')
petsc_dir=$(dirname "$petsc_h")
export PETSC_DIR=${petsc_dir%%/include}
#####################################################################
# From UPC: Building And Using Static And Shared "C" Libraries.html #
# #+begin_QUOTE #
# we need that all jump calls ("goto", in assembly speak) #
# and subroutine calls will use relative addresses, and not #
# absolute addresses. Thus, we need to use ... ~-fPIC~ or #
# ~-fpic~ #
# #+end_QUOTE #
#####################################################################
###############################################################################
# From makepkg.conf
#
# -march (or -mcpu) builds exclusively for an architecture
#
# -mtune optimizes for an architecture, but builds for whole processor family
#
###############################################################################
# -O3 optimises
# I used these for PETSc (from MOOSE)
generic_flags="-fPIC -fopenmp -O3 -march=x86-64 -mtune=generic"
export COPTFLAGS=-O3
export CPPOPTFLAGS=-O3
export CXXOPTFLAGS=-O3
export CFLAGS="$generic_flags"
# Fortify is optional
export CPPFLAGS="$generic_flags -D_FORTIFY_SOURCE=2"
export CXXFLAGS="$generic_flags"
export FFLAGS="$generic_flags"
export FCFLAGS="$generic_flags"
export F90FLAGS="$generic_flags"
export F77FLAGS="$generic_flags"
# I used these for PETSc (from MOOSE)
export METHODS="opt oprof dbg"
CONFOPTS=(
--enable-cxx11-required # force C++11 standard
--enable-petsc-hypre-required # recommended by MOOSE
--with-metis=PETSc # use PETSCs' metis
--enable-metaphysicl-required # recommended by MOOSE
--enable-vtk-required
--enable-curl
--enable-hdf5
# --enable-complex # make sure to compile PETSc with complex too
--with-pic
--enable-mpi
--enable-fftw # Does this work ?
--enable-shared # shared libraries
--enable-unique-id # from libmesh GitHub wiki
--enable-march # get -march flag for this system
--enable-ifem # infinite elements
--enable-nodeconstraint # from libmesh GitHub wiki
)
./configure \
--prefix=/usr \
$(for (( i=1; i<=${#CONFOPTS[@]}; i++)); do
echo "${CONFOPTS[$i]}";
done)
make clean
make
LC_ALL=C make examples_doc
LC_ALL=C make doc
}
check() {
cd "${srcdir}/${realname}"
make check
}
package() {
cd "${srcdir}/${realname}"
make DESTDIR="${pkgdir}" install
rm -r "${pkgdir}"/usr/{contrib,examples}
rm "${pkgdir}"/usr/Make.common "${pkgdir}"/usr/etc/libmesh/Make.common
rm -r "${pkgdir}"/usr/etc/
}
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