Applications/Voxfe
Contents
Application Details
- Description: VOX-FE is voxel-based FE software, developed jointly between the University of Hull's Medical & Biological Engineering Research Group and Edinburgh Parallel Computing Centre, with a sophisticated graphical user interface that allows the complex loading regimes that are inevitably present in biomechanical analyses to be readily applied to the model geometry, and the resultant 3D stress and strain patterns to be visualized easily.
- Version: 2.0.1
- Modules: voxfe/2.0.1
- Licence: BSD license.
Usage
Description
Biological structures, such as bones, have complex geometries and variable material properties, and experience complex and varying applied loads, for example from muscular activity. To understand the true biomechanical performance of these structures is therefore challenging. Experimental measurements can be extremely difficult, are usually not possible in humans, and are ethically undesirable in animals. Computational modelling is an alternative approach with many advantages over experimental methods.
VOX-FE is voxel-based finite element software specifically developed for the analysis of very large-scale, high-resolution models of complex biological structures. Voxel based modelling allows us to go directly from microCT scan data to finite element models with minimal loss of data and geometry simplifications, thereby capturing all the complex internal and external features. It also allows inclusion of local variation in material properties based on voxel grey scale value. It is these microscopic-level geometry and material property variations that explain much of the complex macroscopic behaviour of bone.
[username@login] module load voxfe/2.0.1
Parallel processing
Through SLURM this would become the script:
#!/bin/bash #SBATCH -J voxfe_dragonfly_mandibles #SBATCH -n 1 # number of cores (nodes) to use #SBATCH -N 1 # ensure that all cores are on the machine #SBATCH --ntasks-per-node 28 #SBATCH -D /home/user/Anax_mandible #SBATCH -o dlb.out #SBATCH -e dlb.err #SBATCH -p highmem # puts the job on a compute node #SBATCH --time=01:00:00 # maximum execution time #SBATCH --exclusive module load intel/mpi/64/5.1.3.181 module load petsc/3.7.5 module load parmetis/4.0.3 module load gcc/5.2.0 module load voxfe/2.0.1 mpirun VoxFESolver /home/user/Anax_mandible/mandible_Anax.voxfe_v2.script
Further Information
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