Using FEniCS Software on the Eagle System
Learn how to use FEniCS software on the Eagle system.
FEniCS is a collection of open-source software components designed to enable the automated solution of differential equations by the finite element method. For documentation, forums, and FAQs, see the FEniCS website.
FEniCS is organized as a collection of interoperable components that together form the FEniCS Project. These components include the problem-solving environment DOLFIN, the form compiler FFC, the finite element tabulator FIAT, the just-in-time compiler Instant, the form language UFL, and a range of additional components.
FEniCS can be programmed both in C++ and Python, but Python programming is the simplest approach to exploring FEniCS and can give high performance.
Currently, FEniCS is supported through Anaconda. Users are required to install their own FEniCS environment with the following commands:
module load conda conda create -n myfenics -c conda-forge fenics mshr matplotlib scipy jupyter
These commands will create a new environment named myfenics which contains all necessary packages as well as some commonly-used packages for programming FEniCS simulations. By default, this Conda environment will be installed in the directory /home/[your username]/.conda-envs/myfenics. It will take roughly 3 GB of storage. Please make sure you have enough storage quota in the home directory before installation by running the du -hs ~ command (which will take a minute or two to complete).
To run FEniCS, execute the following commands using an interactive bash shell or in a Slurm batch submission script with "#!/bin/bash" in the first line:
module load conda
source activate myfenics
For detailed instructions on how to use and write codes using FEniCS, see the FEniCS Documentation page.