How to run fenics in parallel?

1

Hi all,

I’m trying to run my scrip in parallel with

mpirun -np 64 python3 script.py

but get the following error in the terminal:

[v-VirtualBox:02207] *** Process received signal ***
[v-VirtualBox:02207] Signal: Segmentation fault (11)
[v-VirtualBox:02207] Signal code: Address not mapped (1)
[v-VirtualBox:02207] Failing at address: 0x28
[v-VirtualBox:02207] [ 0] /lib/x86_64-linux-gnu/libpthread.so.0(+0x12890)[0x7f83d6214890]
[v-VirtualBox:02207] [ 1] /usr/lib/x86_64-linux-gnu/openmpi/lib/openmpi/mca_pmix_pmix112.so(+0x31433)[0x7f83cd366433]
[v-VirtualBox:02207] [ 2] /usr/lib/x86_64-linux-gnu/libopen-pal.so.20(opal_libevent2022_event_base_loop+0x7f1)[0x7f83d6486c31]
[v-VirtualBox:02207] [ 3] /usr/lib/x86_64-linux-gnu/openmpi/lib/openmpi/mca_pmix_pmix112.so(+0x2efcd)[0x7f83cd363fcd]
[v-VirtualBox:02207] [ 4] /lib/x86_64-linux-gnu/libpthread.so.0(+0x76db)[0x7f83d62096db]
[v-VirtualBox:02207] [ 5] /lib/x86_64-linux-gnu/libc.so.6(clone+0x3f)[0x7f83d5f3288f]
[v-VirtualBox:02207] *** End of error message ***
Segmentation fault (core dumped)

Here all the modules that I am including:

from dolfin import*
import numpy as np
import matplotlib.pyplot as plt
from matplotlib import *
from mshr import *
import os
from scipy.interpolate import interp1d
import scipy as sp

What causes the error? Is there some kind of document that helps using fenics in parallel?
Thank you!

2

How did you install dolfin?
Usually, dolfin scripts run out of the box in parallel (few exceptions)
Have you tried to run some of the demos in parallel?
(Bitbucket)

1 Like
3

I installed it like this:

sudo apt-get install software-properties-common

sudo add-apt-repository ppa:fenics-packages/fenics

sudo apt-get update

sudo apt-get install --no-install-recommends fenics

I haven’t tried running the simulations, thanks for the hint, will do it.