hp3D

A Scalable MPI/OpenMP hp-Adaptive Finite Element Software Library for Complex Multiphysics Applications

Downloading the library

1. Clone the repository
2. via HTTPS: git clone https://github.com/Oden-EAG/hp3d.git
3. via SSH: git clone git@github.com:Oden-EAG/hp3d.git
4. Access the main directory: cd hp3d/trunk

Compiling the library

1. Create m_options file in hp3d/trunk/: Copy one of the existing m_options files from hp3d/trunk/m_options_files/ into hp3d/trunk/. For example: cp m_options_files/m_options_linux ./m_options
2. Modify m_options file to set the correct path to the main directory: Set the HP3D_BASE_PATH to the path of the hp3d/trunk/
3. To compile the library, type make in hp3d/trunk/. Before compiling, you must link to the external libraries and set compiler options by modifying the m_options file as described below.

• Note: We recommend configuring PETSc with all of hp3D's dependencies (see below). Then, the default m_options files m_options_files/m_options_linux and m_options_files/m_options_macos only require setting the corresponding values of PETSC_DIR and PETSC_ARCH to link to the required external libraries.

Linking to external libraries

The m_options file must link to the correct paths for external libraries. The following external libraries are used: - Intel MKL [optional] - X11 [optional] - PETSc (all following packages can be installed with PETSc) - HDF5/pHDF5 - MUMPS - Metis/ParMetis - Scotch/PT-Scotch - PORD - Zoltan

For example, assuming MPI libraries are installed, PETSc configure may look like this: ./configure --with-cc=mpicc --with-cxx=mpicxx --with-fc=mpif90 --with-mpiexec=mpirun \ --download-fblaslapack=yes \ --download-scalapack=yes \ --download-mumps=yes \ --download-metis=yes \ --download-parmetis=yes \ --download-ptscotch=yes \ --download-zoltan=yes \ --with-zoltan-fortran-bindings=1 \ --download-hdf5=yes \ --with-hdf5-fortran-bindings=1 \ --with-shared-libraries=0 \ --with-debugging=0 \ --with-scalar-type=real \ --PETSC_ARCH=arch-debian-real Note: PETSc can also install MPI libraries if needed, e.g. --download-openmpi=yes or --download-mpich=yes.

Compiler options

Compilation is governed by preprocessing flags HP3D_COMPLEX and HP3D_DEBUG. - HP3D_COMPLEX = 0 , stiffness matrix, load vector(s) and solution DOFs are real-valued - HP3D_COMPLEX = 1 , stiffness matrix, load vector(s) and solution DOFs are complex-valued - HP3D_DEBUG = 0 , compiler uses optimization flags, and the library performs only minimal checks during the computation - HP3D_DEBUG = 1 , compiler uses debug flags, and the library performs additional checks during the computation

Library will be created under either hp3d/trunk/complex/ or hp3d/trunk/real/.

Additional preprocessing flags for enabling/disabling dependencies on third-party libraries: - HP3D_USE_INTEL_MKL = 0/1 , disable/enable dependency on Intel MKL package - HP3D_USE_MPI_F08 = 0/1 , disable/enable MPI Fortran 2008 binding (module mpi_f08) - HP3D_USE_OPENMP = 0/1 , disable/enable OpenMP threading - HP3D_USE_X11 = 0/1 , disable/enable dependency on X11

Verifying build

In addition to the default make that builds and installs the hp3D library, the makefile provides various targets which can be viewed via make help. For example, use make check to run a quick check after building the library, or run more extensive tests using make test.

Compiling a problem

Projects are implemented in hp3d/trunk/problems/. A few projects have been implemented and can serve as an example. For example, /problems/POISSON/GALERKIN/ is a Galerkin implementation for the classical variational Poisson problem. To compile and run the problem, type make in the project folder, i.e., cd problems/POISSON/GALERKIN; make; ./run.sh.

Citing hp3D

Please add the following citation to any paper, technical report, or article that incorporated the hp3D library: bibtex @article{hp2024joss, Author = {Henneking, Stefan and Petrides, Socratis and Fuentes, Federico and Badger, Jacob and Demkowicz, Leszek}, Title = {{$hp$3D: A Scalable MPI/OpenMP $hp$-Adaptive Finite Element Software Library for Complex Multiphysics Applications}}, Publisher = {The Open Journal}, Journal = {Journal of Open Source Software}, Year = {2024}, Volume = {9}, Number = {95}, Pages = {5946}, doi = {10.21105/joss.05946}} And, optionally, bibtex @article{hpUserManual, Author = {Henneking, Stefan and Demkowicz, Leszek}, Title = {{$hp$3D User Manual}}, Journal={arXiv preprint arXiv:2207.12211}, Year = {2022}} bibtex @book{hpBook3, Author = {Henneking, Stefan and Demkowicz, Leszek and Petrides, Socratis and Fuentes, Federico and Keith, Brendan and Gatto, Paolo}, Title = {{Computing with $hp$ Finite Elements. III. Parallel $hp$3D Code}}, Publisher = {In preparation}, Year = {2024}} bibtex @book{hpBook2, Author = {Demkowicz, Leszek and Kurtz, Jason and Pardo, David and Paszy\'{n}ski, Maciej and Rachowicz, Waldemar and Zdunek, Adam}, Title = {{Computing with $hp$ Finite Elements. II. Frontiers: Three-Dimensional Elliptic and Maxwell Problems with Applications}}, Publisher = {Chapman \& Hall/CRC}, Year = {2007}} bibtex @book{hpBook1, Author = {Demkowicz, Leszek}, Title = {{Computing with $hp$ Finite Elements. I. One- and Two-Dimensional Elliptic and Maxwell Problems}}, Publisher = {Chapman \& Hall/CRC Press, Taylor and Francis}, Year = {2006}} bibtex @article{shape2015, Author = {Fuentes, Federico and Keith, Brendan and Demkowicz, Leszek and Nagaraj, Sriram}, Title = {Orientation embedded high order shape functions for the exact sequence elements of all shapes}, Publisher = {Elsevier}, Journal = {Computers \& Mathematics with Applications}, Year = {2015}, Volume = {70}, Number = {4}, Pages = {353--458}}

User Guide

The user manual is continuously updated and maintained here: https://github.com/Oden-EAG/hp3duserguide (LaTeX source)

A PDF version of the user manual is available on arXiv: https://arxiv.org/abs/2207.12211

How to Contribute

hp3D is distributed under the terms of the BSD-3 license. All new contributions must be made under this license.

Contributions of all kinds are welcome, including bug fixes, code optimizations, new capabilities, improved documentation, and model problems or applications. The new feature or contribution should be developed on a properly named feature branch based off of hp3d:master in a forked repository. If you would like to propose a contribution, please use a pull request (PR) toward the hp3d:master branch from your forked hp3D repository. Before starting a PR or working on a new feature, we encourage opening an issue first and discussing the new feature or contribution with the developer team.

Support

The issue tracker serves as the primary tool for resolving questions related to code features, etc.

For other inquiries, please contact: stefan@oden.utexas.edu, leszek@oden.utexas.edu