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Mesh Copy/Move/Merge Tool for Reactor Simulation Applications

Reactor core simulations require the construction and mesh generation for core models consisting of lattices of fuel and other rods grouped into assemblies, and lattices of assemblies of several types grouped into a core model. A set of tools has been described for generating assembly and core lattice models. Both rectangular and hexagonal lattices are supported. The tools operate in three stages. First, assembly models of various types can be generated by the AssyGen tool, based on input describing the content of unit cells, the arrangement of unit cells in the lattice, and the extent of the lattice and any surrounding material. After generating the assembly model, the model is meshed with the CUBIT mesh generation toolkit, optionally based on a journal file output by AssyGen. After one or more assembly model meshes have been constructed, they are arranged in a core model using the CoreGen tool. The input for CoreGen is similar to that of AssyGen, with assembly models substituted for unit cells. AssyGen and CoreGen also annotate the models with material and volume groupings necessary for specifying materials and boundary conditions required by the analysis. The AssyGen and CoreGen tools are packaged in the open-source MeshKit library for mesh generation; download and build instructions are included in this document.

22 GENERAL STUDIES OF NUCLEAR REACTORS↗

Converting Projects from STK Classic to STK

The version of STK (Sierra ToolKit) that has long been provided with Trilinos is no longer supported by the core develop- ment team. With the introduction of a the new STK library into Trilinos, the old STK has been renamed to stk classic. This document contains a rough guide of how to port a stk classic code to STK.

97 MATHEMATICS AND COMPUTING↗

Preliminary study of the inclusion of Water-based Liquid Scintillator in the WATCHMAN Detector

This note summarizes an effort to characterize the effects of adding water-based liquid scintillator to the WATCHMAN detector. A detector model was built in the Geant4 Monte Carlo toolkit, and the position reconstruction of positrons within the detector was compared with and without scintillator. This study highlights the need for further modeling studies and small-scale experimental studies before inclusion into a large-scale detector, as the benefits compared to the associated costs are unclear.

47 OTHER INSTRUMENTATION↗

NEAMS Update. Quarterly Report for January - March 2014

This quarterly report covers the following points: A fully three-dimensional smeared cracking model has been implemented and tested in BISON; DAKOTA-BISON was used to study the parameters that govern heat transfer across the fuel-cladding; Calculations of grain boundary mobility in UO 2 have been extended to high temperatures; Mesh adaptivity is being employed in MARMOT simulations to increase computational efficiency; Molecular dynamics simulations have shown correlation between atomic displacements and the anisotropic thermal conductivity in UO 2 ; The SHARP team continues to address the application of the toolkit to assembly deformations driven by reactivity feedback; The Nek5000 team has extended the low-Machnumber capability to mixtures with multiple species; The generalized cross section library has been tested for various fuel assemblies and reactor types; and The subgroup cross-section interface was successfully implemented in PROTEUS-SN (page 6).

99 GENERAL AND MISCELLANEOUS↗

PETSc Users Manual (Rev. 3.3)

This manual describes the use of PETSc for the numerical solution of partial differential equations and related problems on high-performance computers. The Portable, Extensible Toolkit for Scientific Computation (PETSc) is a suite of data structures and routines that provide the building blocks for the implementation of large-scale application codes on parallel (and serial) computers. PETSc uses the MPI standard for all message-passing communication. PETSc includes an expanding suite of parallel linear, nonlinear equation solvers and time integrators that may be used in application codes written in Fortran, C, C++, Python, and MATLAB (sequential). PETSc provides many of the mechanisms needed within parallel application codes, such as parallel matrix and vector assembly routines. The library is organized hierarchically, enabling users to employ the level of abstraction that is most appropriate for a particular problem. By using techniques of object-oriented programming, PETSc provides enormous flexibility for users. PETSc is a sophisticated set of software tools; as such, for some users it initially has a much steeper learning curve than a simple subroutine library. In particular, for individuals without some computer science background, experience programming in C, C++ or Fortran and experience using a debugger such as gdb or dbx, it may require a significant amount of time to take full advantage of the features that enable efficient software use. However, the power of the PETSc design and the algorithms it incorporates may make the efficient implementation of many application codes simpler than “rolling them” yourself; For many tasks a package such as MATLAB is often the best tool; PETSc is not intended for the classes of problems for which effective MATLAB code can be written. PETSc also has a MATLAB interface, so portions of your code can be written in MATLAB to “try out” the PETSc solvers. The resulting code will not be scalable however because currently MATLAB is inherently not scalable; and PETSc should not be used to attempt to provide a “parallel linear solver” in an otherwise sequential code. Certainly all parts of a previously sequential code need not be parallelized but the matrix generation portion must be parallelized to expect any kind of reasonable performance. Do not expect to generate your matrix sequentially and then “use PETSc” to solve the linear system in parallel. Since PETSc is under continued development, small changes in usage and calling sequences of routines will occur. PETSc is supported; see the web site http://www.mcs.anl.gov/petsc for information on contacting support. A http://www.mcs.anl.gov/petsc/publications may be found a list of publications and web sites that feature work involving PETSc. We welcome any reports of corrections for this document.

97 MATHEMATICS AND COMPUTING↗

PETSc Users Manual (Rev. 3.4)

This manual describes the use of PETSc for the numerical solution of partial differential equations and related problems on high-performance computers. The Portable, Extensible Toolkit for Scientific Computation (PETSc) is a suite of data structures and routines that provide the building blocks for the implementation of large-scale application codes on parallel (and serial) computers. PETSc uses the MPI standard for all message-passing communication. PETSc includes an expanding suite of parallel linear, nonlinear equation solvers and time integrators that may be used in application codes written in Fortran, C, C++, Python, and MATLAB (sequential). PETSc provides many of the mechanisms needed within parallel application codes, such as parallel matrix and vector assembly routines. The library is organized hierarchically, enabling users to employ the level of abstraction that is most appropriate for a particular problem. By using techniques of object-oriented programming, PETSc provides enormous flexibility for users. PETSc is a sophisticated set of software tools; as such, for some users it initially has a much steeper learning curve than a simple subroutine library. In particular, for individuals without some computer science background, experience programming in C, C++ or Fortran and experience using a debugger such as gdb or dbx, it may require a significant amount of time to take full advantage of the features that enable efficient software use. However, the power of the PETSc design and the algorithms it incorporates may make the efficient implementation of many application codes simpler than “rolling them” yourself; For many tasks a package such as MATLAB is often the best tool; PETSc is not intended for the classes of problems for which effective MATLAB code can be written. PETSc also has a MATLAB interface, so portions of your code can be written in MATLAB to “try out” the PETSc solvers. The resulting code will not be scalable however because currently MATLAB is inherently not scalable; and PETSc should not be used to attempt to provide a “parallel linear solver” in an otherwise sequential code. Certainly all parts of a previously sequential code need not be parallelized but the matrix generation portion must be parallelized to expect any kind of reasonable performance. Do not expect to generate your matrix sequentially and then “use PETSc” to solve the linear system in parallel. Since PETSc is under continued development, small changes in usage and calling sequences of routines will occur. PETSc is supported; see the web site http://www.mcs.anl.gov/petsc for information on contacting support. A http://www.mcs.anl.gov/petsc/publications may be found a list of publications and web sites that feature work involving PETSc. We welcome any reports of corrections for this document.

97 MATHEMATICS AND COMPUTING↗

PETSc Users Manual (Rev. 3.5)

This manual describes the use of PETSc for the numerical solution of partial differential equations and related problems on high-performance computers. The Portable, Extensible Toolkit for Scientific Computation (PETSc) is a suite of data structures and routines that provide the building blocks for the implementation of large-scale application codes on parallel (and serial) computers. PETSc uses the MPI standard for all message-passing communication. PETSc includes an expanding suite of parallel linear, nonlinear equation solvers and time integrators that may be used in application codes written in Fortran, C, C++, Python, and MATLAB (sequential). PETSc provides many of the mechanisms needed within parallel application codes, such as parallel matrix and vector assembly routines. The library is organized hierarchically, enabling users to employ the level of abstraction that is most appropriate for a particular problem. By using techniques of object-oriented programming, PETSc provides enormous flexibility for users. PETSc is a sophisticated set of software tools; as such, for some users it initially has a much steeper learning curve than a simple subroutine library. In particular, for individuals without some computer science background, experience programming in C, C++ or Fortran and experience using a debugger such as gdb or dbx, it may require a significant amount of time to take full advantage of the features that enable efficient software use. However, the power of the PETSc design and the algorithms it incorporates may make the efficient implementation of many application codes simpler than “rolling them” yourself. ;For many tasks a package such as MATLAB is often the best tool; PETSc is not intended for the classes of problems for which effective MATLAB code can be written. PETSc also has a MATLAB interface, so portions of your code can be written in MATLAB to “try out” the PETSc solvers. The resulting code will not be scalable however because currently MATLAB is inherently not scalable; and PETSc should not be used to attempt to provide a “parallel linear solver” in an otherwise sequential code. Certainly all parts of a previously sequential code need not be parallelized but the matrix generation portion must be parallelized to expect any kind of reasonable performance. Do not expect to generate your matrix sequentially and then “use PETSc” to solve the linear system in parallel. Since PETSc is under continued development, small changes in usage and calling sequences of routines will occur. PETSc is supported; see the web site http://www.mcs.anl.gov/petsc for information on contacting support. A http://www.mcs.anl.gov/petsc/publications may be found a list of publications and web sites that feature work involving PETSc. We welcome any reports of corrections for this document.

97 MATHEMATICS AND COMPUTING↗

End-User Evaluation of SHARP for Analysis of Sodium-Cooled Fast Reactors

The DOE Nuclear Energy Advanced Modeling and Simulation (NEAMS) program is developing the SHARP toolkit to support growing reactor analysis needs in other programs. Although SHARP includes physics modules—especially the computational fluid dynamics code Nek5000 and the structural mechanics tools in Diablo—that have an existing user-base in other fields, most of the analysis and validation efforts for nuclear reactor applications have been performed by members of SHARP’s own development team. The SHARP development team includes engineers and computational scientists from a diverse set of backgrounds, including nuclear engineering. However, before the SHARP tools can be adopted by the Advanced Reactor Technology (ART) program to support the analysis of sodium-cooled fast reactors (SFRs), it would be beneficial for an outside set of analysts and engineers to begin using SHARP and providing feedback to both programs. The authors of this report were charged with learning to use SHARP, applying SHARP to SFR analyses of interest to ART, evaluating the tools, and providing a set of recommendations and requirements to guide future development efforts by the NEAMS program. The authors are engineers (nuclear, mechanical, and civil) by training; all have experience in modeling and simulation for nuclear energy applications; all have either supported ART directly or report to a supervisor who does. This report is a formal summary of the findings of this team of engineers—the potential end-users of SHARP for ART activities. In an informal way, this effort also opened up communication lines between the SHARP developers and ART engineers, which will continue beyond the scope of this effort.

22 GENERAL STUDIES OF NUCLEAR REACTORS↗

VTK-m Users' Guide (Version 0.0)

VTK-m is written in C++ and makes extensive use of templates. The toolkit is implemented as a header library, meaning that all the code is implemented in header files (with extension .h) and completely included in any code that uses it. This is typically necessary of template libraries, which need to be compiled with template parameters that are not known until they are used. This also provides the convenience of allowing the compiler to inline user code for better performance.

97 MATHEMATICS AND COMPUTING↗

Preliminary Analysis of the Transient Reactor Test Facility (TREAT) with PROTEUS

The neutron transport code PROTEUS has been used to perform preliminary simulations of the Transient Reactor Test Facility (TREAT). TREAT is an experimental reactor designed for the testing of nuclear fuels and other materials under transient conditions. It operated from 1959 to 1994, when it was placed on non-operational standby. The restart of TREAT to support the U.S. Department of Energy’s resumption of transient testing is currently underway. Both single assembly and assembly-homogenized full core models have been evaluated. Simulations were performed using a historic set of WIMS-ANL-generated cross-sections as well as a new set of Serpent-generated cross-sections. To support this work, further analyses were also performed using additional codes in order to investigate particular aspects of TREAT modeling. DIF3D and the Monte-Carlo codes MCNP and Serpent were utilized in these studies. MCNP and Serpent were used to evaluate the effect of geometry homogenization on the simulation results and to support code-to-code comparisons. New meshes for the PROTEUS simulations were created using the CUBIT toolkit, with additional meshes generated via conversion of selected DIF3D models to support code-to-code verifications. All current analyses have focused on code-to-code verifications, with additional verification and validation studies planned. The analysis of TREAT with PROTEUS-SN is an ongoing project. This report documents the studies that have been performed thus far, and highlights key challenges to address in future work.

22 GENERAL STUDIES OF NUCLEAR REACTORS↗

RELAP-7 User's Guide

The document contains a user's guide on how to run the RELAP-7 code. The RELAP-7 code is the next generation nuclear reactor system safety analysis code being developed at the Idaho National Laboratory. RELAP-7 will become the main reactor systems simulation toolkit for the LWRS (Light Water Reactor Sustainability) program’s RISMC (Risk Informed Safety Margin Characterization) effort and the next generation tool in the RELAP reactor safety/systems analysis application series. RELAP-7 is written with object oriented programming language C++. A number of example problems and their associated input files are presented in this document to guide users to run the RELAP-7 code starting with simple pipe problems to problems with increasing complexity.

21 SPECIFIC NUCLEAR REACTORS AND ASSOCIATED PLANTS↗

CZT nanoRAIDER_VFG Factsheet

Brookhaven National Laboratory (BNL) is working with FLIR System Inc., the manufacturer of the nanoRAIDER, to design a handheld device based on a position-sensitive virtual Frisch-grid (VFG) Cadmium-Zinc-Telluride (CdZnTe or CZT) detector array (with 1% or better energy resolution). The new device called nanoRAIDER VFG will be an improvement to the current nanoRAIDER, which is a compact gamma-ray detection instrument manufactured by FLIR Systems Inc. that employs relatively lower-performing CZT hemispheric detectors (i.e., 3%-FWHM CZT detectors). The nanoRAIDER will significantly improve the accuracy while maintaining similar efficiency, as compared to the nanoRAIDER, for in-field analysis of nuclear materials and detection of undeclared activities during inspections conducted by the International Atomic Energy Agency (IAEA). Since the nanoRAIDER is currently used by the IAEA as part of its Complementary Access toolkit, a relatively quick acceptance of the nanoRAIDER VFG for safeguards is anticipated. The nanoRAIDER VFG will help address several items listed in the IAEA’s Long-Term R&D Plan that could enhance the abilities to detect undeclared nuclear material and activities.

36 MATERIALS SCIENCE↗

Progress for the Industry Application External Hazard Analyses Early Demonstration

This report describes the current progress and status related to the Industry Application #2 focusing on External Hazards. For this industry application within the Light Water Reactor Sustainability (LWRS) Program Risk-Informed Safety Margin Characterization (RISMC) R&D Pathway, we will create the Risk-Informed Margin Management (RIMM) approach to represent meaningful (i.e., realistic facility representation) event scenarios and consequences by using an advanced 3D facility representation that will evaluate external hazards such as flooding and earthquakes in order to identify, model and analyze the appropriate physics that needs to be included to determine plant vulnerabilities related to external events; manage the communication and interactions between different physics modeling and analysis technologies; and develop the computational infrastructure through tools related to plant representation, scenario depiction, and physics prediction. One of the unique aspects of the RISMC approach is how it couples probabilistic approaches (the scenario) with mechanistic phenomena representation (the physics) through simulation. This simulation-based modeling allows decision makers to focus on a variety of safety, performance, or economic metrics. In this report, we describe the evaluation of various physics toolkits related to flooding representation. Ultimately, we will be coupling the flooding representation with other events such as earthquakes in order to provide coupled physics analysis for scenarios where interactions exist.

21 SPECIFIC NUCLEAR REACTORS AND ASSOCIATED PLANTS↗

Year End Progress Report on Rattlesnake Improvements

Rattlesnake is a MOOSE-based radiation transport application developed at INL to support modern multi-physics simulations. At the beginning of the last year, Rattlesnake was able to perform steady-state, transient and eigenvalue calculations for the multigroup radiation transport equations. Various discretization schemes, including continuous finite element method (FEM) with discrete ordinates method (SN) and spherical harmonics expansion method (PN) for the self-adjoint angular flux (SAAF) formulation, continuous FEM (CFEM) with SN for the least square (LS) formulation, diffusion approximation with CFEM and discontinuous FEM (DFEM), have been implemented. A separate toolkit, YAKXS, for multigroup cross section management was developed to support Rattlesnake calculations with feedback both from changes in the field variables, such as fuel temperature, coolant density, and etc., and in isotope inventory. The framework for doing nonlinear diffusion acceleration (NDA) within Rattlesnake has been set up, and both NDA calculations with SAAF-SN-CFEM scheme and Monte Carlo with OpenMC have been performed. It was also used for coupling BISON and RELAP-7 for the full-core multiphysics simulations. Within the last fiscal year, significant improvements have been made in Rattlesnake. Rattlesnake development was migrated into our internal GITLAB development environment at the end of year 2014. Since then total 369 merge requests has been accepted into Rattlesnake. It is noted that the MOOSE framework that Rattlesnake is based on is under continuous developments. Improvements made in MOOSE can improve the Rattlesnake. It is acknowledged that MOOSE developers spent efforts on patching Rattlesnake for the improvements made on the framework side. This report will not cover the code restructuring for better readability and modularity and documentation improvements, which we have spent tremendous effort on. It only details some of improvements in the following sections.

22 GENERAL STUDIES OF NUCLEAR REACTORS↗

Conceptual Model of Climate Change Impacts at LANL

Goal 9 of the LANL FY15 Site Sustainability Plan (LANL 2014a) addresses Climate Change Adaptation. As part of Goal 9, the plan reviews many of the individual programs the Laboratory has initiated over the past 20 years to address climate change impacts to LANL (e.g. Wildland Fire Management Plan, Forest Management Plan, etc.). However, at that time, LANL did not yet have a comprehensive approach to climate change adaptation. To fill this gap, the FY15 Work Plan for the LANL Long Term Strategy for Environmental Stewardship and Sustainability (LANL 2015) included a goal of (1) establishing a comprehensive conceptual model of climate change impacts at LANL and (2) establishing specific climate change indices to measure climate change and impacts at Los Alamos. Establishing a conceptual model of climate change impacts will demonstrate that the Laboratory is addressing climate change impacts in a comprehensive manner. This paper fulfills the requirement of goal 1. The establishment of specific indices of climate change at Los Alamos (goal 2), will improve our ability to determine climate change vulnerabilities and assess risk. Future work will include prioritizing risks, evaluating options/technologies/costs, and where appropriate, taking actions. To develop a comprehensive conceptual model of climate change impacts, we selected the framework provided in the National Oceanic and Atmospheric Administration (NOAA) Climate Resilience Toolkit (http://toolkit.climate.gov/).

54 ENVIRONMENTAL SCIENCES↗

PETSc Users Manual Revision 3.7

This manual describes the use of PETSc for the numerical solution of partial differential equations and related problems on high-performance computers. The Portable, Extensible Toolkit for Scientific Computation (PETSc) is a suite of data structures and routines that provide the building blocks for the implementation of large-scale application codes on parallel (and serial) computers. PETSc uses the MPI standard for all message-passing communication.

97 MATHEMATICS AND COMPUTING↗

Towards a Scalable and Adaptive Application Support Platform for Large-Scale Distributed E-Sciences in High-Performance Network Environments

The advent of large-scale collaborative scientific applications has demonstrated the potential for broad scientific communities to pool globally distributed resources to produce unprecedented data acquisition, movement, and analysis. System resources including supercomputers, data repositories, computing facilities, network infrastructures, storage systems, and display devices have been increasingly deployed at national laboratories and academic institutes. These resources are typically shared by large communities of users over Internet or dedicated networks and hence exhibit an inherent dynamic nature in their availability, accessibility, capacity, and stability. Scientific applications using either experimental facilities or computation-based simulations with various physical, chemical, climatic, and biological models feature diverse scientific workflows as simple as linear pipelines or as complex as a directed acyclic graphs, which must be executed and supported over wide-area networks with massively distributed resources. Application users oftentimes need to manually configure their computing tasks over networks in an ad hoc manner, hence significantly limiting the productivity of scientists and constraining the utilization of resources. The success of these large-scale distributed applications requires a highly adaptive and massively scalable workflow platform that provides automated and optimized computing and networking services. This project is to design and develop a generic Scientific Workflow Automation and Management Platform (SWAMP), which contains a web-based user interface specially tailored for a target application, a set of user libraries, and several easy-to-use computing and networking toolkits for application scientists to conveniently assemble, execute, monitor, and control complex computing workflows in heterogeneous high-performance network environments. SWAMP will enable the automation and management of the entire process of scientific workflows with the convenience of a few mouse clicks while hiding the implementation and technical details from end users. Particularly, we will consider two types of applications with distinct performance requirements: data-centric and service-centric applications. For data-centric applications, the main workflow task involves large-volume data generation, catalog, storage, and movement typically from supercomputers or experimental facilities to a team of geographically distributed users; while for service-centric applications, the main focus of workflow is on data archiving, preprocessing, filtering, synthesis, visualization, and other application-specific analysis. We will conduct a comprehensive comparison of existing workflow systems and choose the best suited one with open-source code, a flexible system structure, and a large user base as the starting point for our development. Based on the chosen system, we will develop and integrate new components including a black box design of computing modules, performance monitoring and prediction, and workflow optimization and reconfiguration, which are missing from existing workflow systems. A modular design for separating specification, execution, and monitoring aspects will be adopted to establish a common generic infrastructure suited for a wide spectrum of science applications. We will further design and develop efficient workflow mapping and scheduling algorithms to optimize the workflow performance in terms of minimum end-to-end delay, maximum frame rate, and highest reliability. We will develop and demonstrate the SWAMP system in a local environment, the grid network, and the 100Gpbs Advanced Network Initiative (ANI) testbed. The demonstration will target scientific applications in climate modeling and high energy physics and the functions to be demonstrated include workflow deployment, execution, steering, and reconfiguration. Throughout the project period, we will work closely with the science communities in the fields of climate modeling and high energy physics including Spallation Neutron Source (SNS) and Large Hadron Collider (LHC) projects to mature the system for production use.

97 MATHEMATICS AND COMPUTING↗