Created attachment 880242 [details] emerge --info The last dealii-9.5.0 actualization have give me compilation errors with any code, when I compile it enabling "mpi" use flag; in example: %make run [ 33%] Building CXX object CMakeFiles/step-1.dir/step-1.cc.o [ 66%] Linking CXX executable step-1 [ 66%] Built target step-1 [100%] Run step-1 with Debug configuration make[3]: *** [CMakeFiles/run.dir/build.make:71: CMakeFiles/run] Segmentation fault make[2]: *** [CMakeFiles/Makefile2:116: CMakeFiles/run.dir/all] Error 2 make[1]: *** [CMakeFiles/Makefile2:123: CMakeFiles/run.dir/rule] Error 2 make: *** [Makefile:137: run] Error 2 make run 37.83s user 12.90s system 92% cpu 54.941 total Downgrade nor use dealii Rollin release version can solve the problem.
Created attachment 880243 [details] emerge -pv dealii
Created attachment 880244 [details] emerge -pv mpich
Created attachment 880245 [details] gdb log
Created attachment 880246 [details] emerge @system
Hi, in fact I've depleted all resources to fix dealii. Please Tamiko just give me some clues and I can continue deepen into the problem solution; I use this library as a work tool and in the near future I wanna help you to maintain it, but I need your help today.
(In reply to jang0 from comment #5) > Hi, in fact I've depleted all resources to fix dealii. Please Tamiko just > give me some clues and I can continue deepen into the problem solution; I > use this library as a work tool and in the near future I wanna help you to > maintain it, but I need your help today. Would you mind to attach the output of $ ldd step-1 as well?
Failing construct in question: 1730 template <typename T> 1731 const MPI_Datatype 1732 mpi_type_id_for_type = internal::MPIDataTypes::mpi_type_id( 1733 static_cast<std::remove_cv_t<std::remove_reference_t<T>> *>(nullptr));
Possibly invoked from this context (source/base/mpi.cc): 101 namespace MPI 102 { 103 #ifdef DEAL_II_WITH_MPI 104 // Provide definitions of template variables for all valid instantiations. 105 template const MPI_Datatype mpi_type_id_for_type<bool>;
I was able to reproduce this issue with sys-cluster/mpich (and your exact collection of USE flags). In the meantime, sys-cluster/openmpi should be fine. I am now triaging whether this depends on one of the use flag combinations (USE="mpi-threads, threads, valgrind") used with mpich and verify that I indeed do not run into the segfault with openmpi.
The bug has been closed via the following commit(s): https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=2c012df379f458f614c12177d41fbaa035706390 commit 2c012df379f458f614c12177d41fbaa035706390 Author: Matthias Maier <tamiko@gentoo.org> AuthorDate: 2024-02-16 01:01:17 +0000 Commit: Matthias Maier <tamiko@gentoo.org> CommitDate: 2024-02-16 01:01:34 +0000 sci-libs/dealii: add 9.5.2, drop 9.5.1 - apply mpich fix Closes: https://bugs.gentoo.org/920556 Signed-off-by: Matthias Maier <tamiko@gentoo.org> sci-libs/dealii/Manifest | 4 ++-- sci-libs/dealii/{dealii-9.5.1.ebuild => dealii-9.5.2.ebuild} | 2 ++ 2 files changed, 4 insertions(+), 2 deletions(-) Additionally, it has been referenced in the following commit(s): https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=71634c39d291459439fadb16adfb9506278d2835 commit 71634c39d291459439fadb16adfb9506278d2835 Author: Matthias Maier <tamiko@gentoo.org> AuthorDate: 2024-02-16 00:55:22 +0000 Commit: Matthias Maier <tamiko@gentoo.org> CommitDate: 2024-02-16 00:59:14 +0000 sci-libs/dealii: add 9.4.2, drop 9.4.1-r1 - apply mpich fix Bug: https://bugs.gentoo.org/920556 Signed-off-by: Matthias Maier <tamiko@gentoo.org> sci-libs/dealii/Manifest | 4 +- ...{dealii-9.4.1-r1.ebuild => dealii-9.4.2.ebuild} | 7 ++- ...-remove-superfluous-explicit-instantiatio.patch | 59 ++++++++++++++++++++++ ...mark-a-template-variable-to-have-const-in.patch | 28 ++++++++++ 4 files changed, 94 insertions(+), 4 deletions(-)
Minimal reproducer for the segfault: inline int mpi_type_id(const unsigned long int *) { return 42; } template <typename T> const int mpi_type_id_for_type = mpi_type_id(static_cast<T *>(nullptr)); void broadcast() { int ierr = mpi_type_id_for_type<unsigned long>; } template const int mpi_type_id_for_type<unsigned long int>; int main() {}
Created attachment 885161 [details] ldd step-1 Here is the ldd step-1 output, I can't work around by installing openmpi instead mpich because dealii compilation fails. Nevertheless I've read in the abovesaid Github page that is a GCC-13 bug, I'll disupgrade it and test. Thank you so much!
(In reply to jang0 from comment #12) > I'll disupgrade it and test. Not necessary, simply test the new revision in the tree with your current setup. > Thank you so much! yw
