Package underworld3

Underworld3 Python package

Underworld3 is a finite element, particle-in-cell geodynamics code that produces mathematically self-describing models through an interface with sympy Underworld3 builds upon the PETSc parallel finite element and solver package, using their petsc4py library.

A common pattern for building underworld3 models is to develop python scripts in notebook-friendly form (e.g. with jupytext) which are thoroughly documented through markdown descriptions. underworld objects are similarly documented so that their underlying algorithmic and mathemcical structure can be examined in a notebook.

python scripts built this way will also be compatible with mpirun for parallel execution.

Documentation

The underworld documentation is in two parts: the user manual / theory manual is a hand-written document that is built from this repository automatically from the sources in the Jupyterbook directory. This api documentation is autogenerated from the code and its annotations. There are two version of each documentation package that are published online. The main (stable) branch

• https://underworldcode.github.io/underworld3/main/index.html
• https://underworldcode.github.io/underworld3/main_api/underworld3/index.html

The development branch has similar documentation:

• https://underworldcode.github.io/underworld3/development/index.html
• https://underworldcode.github.io/underworld3/development_api/underworld3/index.html

Building / installation

Refer to the Dockerfile for uw3 build instructions.

To install from the repository

./compile.sh

An in-place installation may be helpful for developers (as distinct from above) (compile.sh is a convenience wrapper to pip install)

pip install -e . --no-build-isolation

To clean the git repository or all files … be careful.

./clean.sh

Testing and documentation

Run the pytest testing suite with

./test.sh

This API documentation is build with

./docs.sh

Open uw3_api_docs/index.html to browse.

To uninstall

pip uninstall underworld3

Sub-modules

underworld3.adaptivity

underworld3.ckdtree

underworld3.constitutive_models

underworld3.constitutive_models_new

underworld3.coordinates

underworld3.discretisation

underworld3.function

underworld3.kdtree

underworld3.maths

underworld3.meshing

underworld3.mpi

This module contains routines related to parallel operation via the Message Passing Interface (MPI) …

underworld3.scaling

The scaling module provides units and scaling capabilities.

underworld3.swarm

underworld3.systems

underworld3.timing

This module implements some high level timing operations for Underworld, allowing users to determine how walltime is divided between different …

underworld3.utilities

underworld3.visualisation

Functions

def view()

Expand source code

def view():
    from IPython.display import Latex, Markdown, display
    from textwrap import dedent
    import inspect

    ## Docstring (static)
    docstring = dedent(__doc__)
    # docstring = docstring.replace("$", "$").replace("$", "$")
    display(Markdown(docstring))

    return