This report provides documentation for the Sandia Toolkit (STK) modules. STK modules are intended to provide infrastructure that assists the development of computational engineering software such as finite-element analysis applications. STK includes modules for unstructured-mesh data structures, reading/writing mesh files, geometric proximity search, and various utilities. This document contains a chapter for each module, and each chapter contains overview descriptions and usage examples. Usage examples are primarily code listings which are generated from working test programs that are included in the STK code-base. A goal of this approach is to ensure that the usage examples will not fall out of date.
The SNL ATDM Data and Visualization project is developing data management software to improve how applications store and exchange large datasets efficiently on Exascale platforms. The data portion of this project is composed of two related efforts: (1) production work focused on improving Sandia's IOSS library for mesh datasets and (2) research work focused on developing new communication software named FAODEL that enables applications in a workflow to exchange data more efficiently.
This report provides in-depth information and analysis to help create a technical road map for developing next-generation programming models and runtime systems that support Advanced Simulation and Computing (ASC) work- load requirements. The focus herein is on asynchronous many-task (AMT) model and runtime systems, which are of great interest in the context of "Oriascale7 computing, as they hold the promise to address key issues associated with future extreme-scale computer architectures. This report includes a thorough qualitative and quantitative examination of three best-of-class AIM] runtime systems – Charm-++, Legion, and Uintah, all of which are in use as part of the Centers. The studies focus on each of the runtimes' programmability, performance, and mutability. Through the experiments and analysis presented, several overarching Predictive Science Academic Alliance Program II (PSAAP-II) Asc findings emerge. From a performance perspective, AIV runtimes show tremendous potential for addressing extreme- scale challenges. Empirical studies show an AM runtime can mitigate performance heterogeneity inherent to the machine itself and that Message Passing Interface (MP1) and AM11runtimes perform comparably under balanced conditions. From a programmability and mutability perspective however, none of the runtimes in this study are currently ready for use in developing production-ready Sandia ASC applications. The report concludes by recommending a co- design path forward, wherein application, programming model, and runtime system developers work together to define requirements and solutions. Such a requirements-driven co-design approach benefits the community as a whole, with widespread community engagement mitigating risk for both application developers developers. and high-performance computing runtime systein
The Sierra Toolkit computational mesh is a software library intended to support massively parallel multi-physics computations on dynamically changing unstructured meshes. This domain of intended use is inherently complex due to distributed memory parallelism, parallel scalability, heterogeneity of physics, heterogeneous discretization of an unstructured mesh, and runtime adaptation of the mesh. Management of this inherent complexity begins with a conceptual analysis and modeling of this domain of intended use; i.e., development of a domain model. The Sierra Toolkit computational mesh software library is designed and implemented based upon this domain model. Software developers using, maintaining, or extending the Sierra Toolkit computational mesh library must be familiar with the concepts/domain model presented in this report.
The Design through Analysis Realization Team (DART) will provide analysts with a complete toolset that reduces the time to create, generate, analyze, and manage the data generated in a computational analysis. The toolset will be both easy to learn and easy to use. The DART Roadmap Vision provides for progressive improvements that will reduce the Design through Analysis (DTA) cycle time by 90-percent over a three-year period while improving both the quality and accountability of the analyses.
The CUBIT mesh generation environment is a two- and three-dimensional finite element mesh generation tool which is being developed to pursue the goal of robust and unattended mesh generation--effectively automating the generation of quadrilateral and hexahedral elements. It is a solid-modeler based preprocessor that meshes volume and surface solid models for finite element analysis. A combination of techniques including paving, mapping, sweeping, and various other algorithms being developed are available for discretizing the geometry into a finite element mesh. CUBIT also features boundary layer meshing specifically designed for fluid flow problems. Boundary conditions can be applied to the mesh through the geometry and appropriate files for analysis generated. CUBIT is specifically designed to reduce the time required to create all-quadrilateral and all-hexahedral meshes. This manual is designed to serve as a reference and guide to creating finite element models in the CUBIT environment.
GENSHELL is a three-dimensional shell mesh generation program. The three-dimensional shell mesh is generated by mapping a two-dimensional quadrilateral mesh into three dimensions according to one of several types of transformations: translation, mapping onto a spherical, ellipsoidal, or cylindrical surface, and mapping onto a user-defined spline surface. The generated three-dimensional mesh can then be reoriented by offsetting, reflecting about an axis, revolving about an axis, and scaling the coordinates. GENSHELL can be used to mesh complex three-dimensional geometries composed of several sections when the sections can be defined in terms of transformations of two-dimensional geometries. The code GJOIN is then used to join the separate sections into a single body. GENSHELL updates the EXODUS quality assurance and information records to help track the codes and files used to generate the mesh. GENSHELL reads and writes two-dimensional and three-dimensional mesh databases in the GENESIS database format; therefore, it is compatible with the preprocessing, postprocessing, and analysis codes in the Sandia National Laboratories Engineering Analysis Code Access System (SEACAS).
GREPOS is a mesh utility program that repositions or modifies the configuration of a two-dimensional or three-dimensional mesh. GREPOS can be used to change the orientation and size of a two-dimensional or three-dimensional mesh; change the material block, nodeset, and sideset IDs; or ``explode`` the mesh to facilitate viewing of the various parts of the model. GREPOS also updates the EXODUS quality assurance and information records to help track the codes and files used to generate the mesh. GREPOS reads and writes two-dimensional and three-dimensional mesh databases in the GENESIS database format; therefore, it is compatible with the preprocessing, postprocessing, and analysis codes in the Sandia National Laboratories Engineering Analysis Code Access System (SEACAS).
The Sandia National Laboratories (SNL) Engineering Analysis Code Access System (SEACAS) is a collection of structural and thermal codes and utilities used by analysts at SNL. The system includes pre- and post-processing codes, analysis codes, database translation codes, support libraries, UNIX{trademark} shell scripts, and an installation system. SEACAS is used at SNL on a daily basis as a production, research, and development system for the engineering analysts and code developers. Over the past year, approximately 180 days of Cray Y-MP{trademark} CPU time have been used at SNL by SEACAS codes. The job mix includes jobs using only a few seconds of CPU time, up to jobs using two and one-half days of CPU time. SEACAS is running on several different systems at SNL including Cray Unicos, Hewlett Packard HP-UX{trademark}, Digital Equipment Ultrix{trademark}, and Sun SunOS{trademark}. This document is a short description of the codes the SEACAS system.
GROPE is a program that examines the input to a finite element analysis (which is in the GENESIS database format) or the output from an analysis (in the EXODUS database format). GROPE allows the user to examine any value in the database. The display can be directed to the user`s terminal or to a print file.
Aprepro is an algebraic preprocessor that reads a file containing both general text and algebraic, string, or conditional expressions. It interprets the expressions and outputs them to the output file along with the general text. The syntax used in Aprepro is such that all expressions between the delimiters and are evaluated and all other text is simply echoed to the output file. Aprepro contains several mathematical functions, string functions, and flow control constructs. In addition, functions are included that, with some additional files, implement a units conversion system and a material database lookup system. Aprepro was written primarily to simplify the preparation of parameterized input files for finite element analyses at Sandia National Laboratories; however, it can process any text file that does not use the characters.
GJOIN is a two- or three-dimensional mesh combination program. GJOIN combines two or more meshes written in the GENESIS mesh database format into a single GENESIS mesh. Selected nodes in the two meshes that are closer than a specified distance can be combined The geometry of the mesh databases can be modified by scaling, offsetting, revolving, and mirroring. The combined meshes can be further modified by deleting, renaming, or combining material blocks, sideset identifications, or nodeset identifications. GJOIN is one of the mesh generation tools in the Sandia National Laboratories Engineering Analysis Code Access System (SEACAS). GJOIN is typically used with the other SEACAS mesh generation codes GEN3D, GENSHELL, GREPOS, and Aprepro.