PETSC error number 11 when running demo_poisson.py

Errors
1

I am running fenics on windows 10 through unbuntu 22.04 in wsl2. I installed it with ppa and then I tried to run the demo_poisson.py, I got the error as follows:
[0]PETSC ERROR: ------------------------------------------------------------------------
[0]PETSC ERROR: Caught signal number 11 SEGV: Segmentation Violation, probably memory access out of range
[0]PETSC ERROR: Try option -start_in_debugger or -on_error_attach_debugger
[0]PETSC ERROR: or see FAQ — PETSc 3.19.2 documentation
[0]PETSC ERROR: or try http://valgrind.org on GNU/linux and Apple Mac OS X to find memory corruption errors
[0]PETSC ERROR: configure using --with-debugging=yes, recompile, link, and run
[0]PETSC ERROR: to get more information on the crash.
[0]PETSC ERROR: Run with -malloc_debug to check if memory corruption is causing the crash.

MPI_ABORT was invoked on rank 0 in communicator MPI_COMM_WORLD
with errorcode 59.

NOTE: invoking MPI_ABORT causes Open MPI to kill all MPI processes.
You may or may not see output from other processes, depending on
exactly when Open MPI kills them.

I am a newbie to fenics. I have totally no idea how to fix this issue. can anyone give any hint for me?
thank you.

2

First of all, are you running legacy fenics or FEniCSx?
Secondly, could you narrow the error message down to a given line in your code?

3

thank you for your reply.

  1. I installed the fenicsx as follows according to the instruction from GitHub,

The Ubuntu PPA contains binary packages of the FEniCSx components.

To install:

add-apt-repository ppa:fenics-packages/fenics
apt update
apt install fenicsx

so I think I am running FEniCSx, is it right?

  1. I know which line gave the errors, that is
    plotter.show():

so it seems that the fenicsx works well.

4

This might be up to what settings pyvista is using
Ref Cannot display pyvista plot in docker container - #9 by bay_swiss
and
Problem about pyvista - #3 by dparsons

5

thank you. I will try to follow that later.

I just ran into another problem:
I tried to run the file of demo_cahn-hilliard.py

the error is:
Traceback (most recent call last):
File “~/Dolfinx/demo_cahn-hilliard.py”, line 126, in
from basix.ufl import mixed_element, element
ModuleNotFoundError: No module named ‘basix.ufl’

I download the demo_cahn-hilliard.py from GitHub.
the module name has been changed?

6

If you use the PPA packages, you need to checkout the appropriate version of DOLFINx.
I guess that is v0.5.0 or something around that

7

the command
$dpkg -s fenicsx
gives the following informations:

Package: fenicsx
Status: install ok installed
Priority: optional
Section: math
Installed-Size: 11
Maintainer: Debian Science Team debian-science-maintainers@lists.alioth.debian.org
Architecture: all
Source: fenics
Version: 2:0.5.0.2~ppa1~jammy1

so it is v0.5.0.2?
the demos in GitHub are not compatible with this verson of dolfinx?

9

The demos that were released with v0.5 are released here: dolfinx/python/demo at v0.5.2 · FEniCS/dolfinx · GitHub