This note introduces the state of art, of my fibeRIS simulator -> MOOSE extension.

How to install MOOSE environment?

Shenyao Jin, RCP@CSM, shenyaojin@mines.edu

Use cases

The MOOSE environment is used to run the fibeRIS simulator, which is a finite element code for simulating multiphysics problems.

MOOSE environment

I would like to do the work on Lakota. Still, I installed MOOSE env on both Mac and Lakota. It is suggested to install MOOSE on your work directory, such as ~/projects/ or ~/moose/, so that you can easily manage the MOOSE environment and its dependencies.

Installation (refer to INL’s webpage)

For my Mac, it is already compiled and is in ~/.moose/ (I deleted it recently, instead, a newer version is installed in ~/projects/).

The installation will be in the Bakken Mariner folder so that I can easily do the simulation using the specific module.

So I will first install the MOOSE environment on Lakota. I updated my conda (if conda returns error while compiling, you should try mini forge suggested by INL, delete all anaconda files, including .conda, .condarc, etc.) first.

conda update --all --yes

Add INL’s public channel to gain access to INL’s conda package library:

conda config --add channels <https://conda.software.inl.gov/public>

[!Caution] DO NOT USE SUDO If you find yourself using sudo commands while engaging Conda commands… something is not right. The most common reason for needing sudo is due to an improper Conda installation. Conda should be installed to your home directory, without any use of sudo

This command is working on my Linux (depends on time, pls refer to this website; still suggest to align with the MOOSE version):

conda create -n moose moose-dev=2024.12.02=mpich

I suggest to use this on Mac:

conda create --name moose moose-libmesh moose-tools

Then

conda init bash
conda init zsh

I don’t know why we need to initialize bash in macOS(for the default shell is zsh), so I add zsh line.

Then enter this then you can start compile code:

conda activate moose

Compile from the source code:

mkdir -p ~/projects
cd ~/projects
git clone <https://github.com/idaholab/moose.git>
cd moose
git checkout master

Build MOOSE:

cd ~/projects/moose/test
make -j 6

Run test:

cd ~/projects/moose/test
./run_tests -j 6

Clean the cache if encountered error The anaconda itself will cause error

Compile MOOSE: porous media module

To use fiberis.moose, you must compile the MOOSE porous_flow module. Run Makefile in the ~/projects/moose/modules/porous_flow directory:

cd /path/to/moose/root/modules/porous_flow
make -j 6

If successful, you will see a binary file named porous_flow-opt in the same directory.

Fig 1. Porous Flow Module

Configure python path

For MacOS and Linux, you need to set the PYTHONPATH environment variable to include the MOOSE Python bindings. You can do this by adding the following line to your .bashrc or .zshrc file:

export PYTHONPATH=$PYTHONPATH:~/projects/moose/python