dolfin-mech 2024.10.17

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dolfin_mech

A set of FEniCS-based python tools for Computational Mechanics.

The library has notably been used in:

• [Genet (2019). A relaxed growth modeling framework for controlling growth-induced residual stresses. Clinical Biomechanics.]
• [Álvarez-Barrientos, Hurtado & Genet (2021). Pressure-driven micro-poro-mechanics: A variational framework for modeling the response of porous materials. International Journal of Engineering Science.]
• [Patte, Genet & Chapelle (2022). A quasi-static poromechanical model of the lungs. Biomechanics and Modeling in Mechanobiology.]
• [Patte, Brillet, Fetita, Gille, Bernaudin, Nunes, Chapelle & Genet (2022). Estimation of regional pulmonary compliance in idiopathic pulmonary fibrosis based on personalized lung poromechanical modeling. Journal of Biomechanical Engineering.]
• [Tueni, Allain & Genet (2023). On the structural origin of the anisotropy in the myocardium: Multiscale modeling and analysis. Journal of the Mechanical Behavior of Biomedical Materials.]
• [Laville, Fetita, Gille, Brillet, Nunes, Bernaudin & Genet (2023). Comparison of optimization parametrizations for regional lung compliance estimation using personalized pulmonary poromechanical modeling. Biomechanics and Modeling in Mechanobiology.]
• [Peyraut & Genet (2024), A model of mechanical loading of the lungs including gravity and a balancing heterogeneous pleural pressure, Biomechanics and Modeling in Mechanobiology.]

Installation

A working installation of FEniCS (version 2019.1.0) is required to run dolfin_mech. To setup a system, the simplest is to use conda: first install miniconda (note that for Microsoft Windows machines you first need to install WSL, the Windows Subsystem for Linux, and then install miniconda for linux inside the WSL; for Apple MacOS machines with Apple Silicon CPUs, you still need to install the MacOS Intel x86_64 version of miniconda), and then install the necessary packages:

conda create -y -c conda-forge -n dolfin_mech fenics=2019.1.0 meshio=5.3 mpi4py=3.1.3 pip python=3.10
conda activate dolfin_mech
pip install dolfin_mech numpy==1.24