jax-fem 0.0.7

A GPU accelerated Finite element analysis package in JAX.

A GPU-accelerated differentiable finite element analysis package based on JAX. Used to be part of the suite of open-source python packages for Additive Manufacturing (AM) research, JAX-AM.

Finite Element Method (FEM)

FEM is a powerful tool, where we support the following features

• 2D quadrilateral/triangle elements
• 3D hexahedron/tetrahedron elements
• First and second order elements
• Dirichlet/Neumann/Robin boundary conditions
• Linear and nonlinear analysis including
  • Heat equation
  • Linear elasticity
  • Hyperelasticity
  • Plasticity (macro and crystal plasticity)
• Differentiable simulation for solving inverse/design problems without human deriving sensitivities, e.g.,
  • Topology optimization
  • Optimal thermal control
• Integration with PETSc for solver choices

Updates (Dec 11, 2023):

• We now support multi-physics problems in the sense that multiple variables can be solved monolithically. For example, consider running python -m applications.stokes.example
• Weak form is now defined through volume integral and surface integral. We can now treat body force, "mass kernel" and "Laplace kernel" in a unified way through volume integral, and treat "Neumann B.C." and "Robin B.C." in a unified way through surface integral.

Thermal profile in direct energy deposition.

Linear static analysis of a bracket.

Crystal plasticity: grain structure (left) and stress-xx (right).

Stokes flow: velocity (left) and pressure(right).

Topology optimization with differentiable simulation.

Installation

Create a conda environment from the given environment.yml file and activate it:

conda env create -f environment.yml
conda activate jax-fem-env

Install JAX

• See jax installation instructions. Depending on your hardware, you may install the CPU or GPU version of JAX. Both will work, while GPU version usually gives better performance.

Then there are two options to continue:

Option 1

Clone the repository:

git clone https://github.com/deepmodeling/jax-fem.git
cd jax-fem

and install the package locally:

pip install -e .

Quick tests: You can check demos/ for a variety of FEM cases. For example, run

python -m demos.hyperelasticity.example

for hyperelasticity.

Also,

python -m tests.benchmarks

will execute a set of test cases.

Option 2

Install the package from the PyPI release directly:

pip install jax-fem

Quick tests: You can create an example.py file and run it:

python example.py

import jax
import jax.numpy as np
import os

from jax_fem.problem import Problem
from jax_fem.solver import solver
from jax_fem.utils import save_sol
from jax_fem.generate_mesh import get_meshio_cell_type, Mesh, rectangle_mesh

class Poisson(Problem):
    def get_tensor_map(self):
        return lambda x: x

    def get_mass_map(self):
        def mass_map(u, x):
            val = -np.array([10*np.exp(-(np.power(x[0] - 0.5, 2) + np.power(x[1] - 0.5, 2)) / 0.02)])
            return val
        return mass_map

ele_type = 'QUAD4'
cell_type = get_meshio_cell_type(ele_type)
Lx, Ly = 1., 1.
meshio_mesh = rectangle_mesh(Nx=32, Ny=32, domain_x=Lx, domain_y=Ly)
mesh = Mesh(meshio_mesh.points, meshio_mesh.cells_dict[cell_type])

def left(point):
    return np.isclose(point[0], 0., atol=1e-5)

def right(point):
    return np.isclose(point[0], Lx, atol=1e-5)

def bottom(point):
    return np.isclose(point[1], 0., atol=1e-5)

def top(point):
    return np.isclose(point[1], Ly, atol=1e-5)

def dirichlet_val(point):
    return 0.

location_fns = [left, right, bottom, top]
value_fns = [dirichlet_val]*4
vecs = [0]*4
dirichlet_bc_info = [location_fns, vecs, value_fns]

problem = Poisson(mesh=mesh, vec=1, dim=2, ele_type=ele_type, dirichlet_bc_info=dirichlet_bc_info)
sol = solver(problem)

data_dir = os.path.join(os.path.dirname(__file__), 'data')
vtk_path = os.path.join(data_dir, f'vtk/u.vtu')
save_sol(problem.fes[0], sol[0], vtk_path)

By running the code above and use Paraview for visualization, you should see the following solution.

Solution to the Poisson's equation due to a source term.

Tutorial

Example	Highlight
poisson	$${\color{green}Basics:}$$ Poisson's equation in a unit square domain with Dirichlet and Neumann boundary conditions, as well as a source term.
linear_elasticity	$${\color{green}Basics:}$$ Bending of a linear elastic beam due to Dirichlet and Neumann boundary conditions. Second order tetrahedral element (TET10) is used.
hyperelasticity	$${\color{blue}Nonlinear \space Constitutive \space Law:}$$ Deformation of a hyperelastic cube due to Dirichlet boundary conditions.
plasticity	$${\color{blue}Nonlinear \space Constitutive \space Law:}$$ Perfect J2-plasticity model is implemented for small deformation theory.
phase_field_fracture	$${\color{orange}Multi-physics \space Coupling:}$$ Phase field fracture model is implemented. Staggered scheme is used for two-way coupling of displacement field and damage field. Miehe's model of spectral decomposition is implemented for a 3D case.
thermal_mechanical	$${\color{orange}Multi-physics \space Coupling:}$$ Thermal-mechanical modeling of metal additive manufacturing process. One-way coupling is implemented (temperature affects displacement).
thermal_mechanical_full	$${\color{orange}Multi-physics \space Coupling:}$$ Thermal-mechanical modeling of 2D plate. Two-way coupling (temperature and displacement) is implemented with a monolithic scheme.
wave	$${\color{lightblue}Time \space Dependent \space Problem:}$$ The scalar wave equation is solved with backward difference scheme.
topology_optimization	$${\color{red}Inverse \space Problem:}$$ SIMP topology optimization for a 2D beam. Note that sensitivity analysis is done by the program, rather than manual derivation.
inverse	$${\color{red}Inverse \space Problem:}$$ Sanity check of how automatic differentiation works.
plasticity_gradient	$${\color{red}Inverse \space Problem:}$$ Automatic sensitivity analysis involving history variables such as plasticity.

License

This project is licensed under the GNU General Public License v3 - see the LICENSE for details.

Citations

If you found this library useful in academic or industry work, we appreciate your support if you consider 1) starring the project on Github, and 2) citing relevant papers:

@article{xue2023jax,
  title={JAX-FEM: A differentiable GPU-accelerated 3D finite element solver for automatic inverse design and mechanistic data science},
  author={Xue, Tianju and Liao, Shuheng and Gan, Zhengtao and Park, Chanwook and Xie, Xiaoyu and Liu, Wing Kam and Cao, Jian},
  journal={Computer Physics Communications},
  pages={108802},
  year={2023},
  publisher={Elsevier}
}