Topic: Open-Source Software

ROSE, an open-source project maintained by Livermore researchers, provides easy access to complex, automated compiler technology and assistance.

The Earth System Grid Federation is a web-based tool set that powers most global climate change research.

hzip 1.0.1 is a C++ library for lossless compression of structured and unstructured meshes composed of cells with hypercube topology.

The flourishing of simulation-based scientific discovery has also resulted in the emergence of the verification and validation (V&V) and uncertainty quantification (UQ) disciplines. The goal of these emerging disciplines is to enable scientists to make precise statements about the degree of confidence they have in their simulation-based predictions. Here we focus on the UQ discipline, which is essential for validating and verifying computer models.

ODEPACK is a collection of Fortran solvers for the initial value problem for ordinary differential equation systems. The collection is suitable for both stiff and nonstiff systems and includes solvers for systems given in both explicit and linearly implicit forms.

zfp is an open-source C/C++ library for compressed floating-point and integer arrays that support high throughput read and write random access.

The Serpentine project develops advanced finite difference methods for solving hyperbolic wave propagation problems. Our approach is based on solving the governing equations in second order differential formulation using difference operators that satisfy the summation by parts principle.

Performance analysis of parallel scientific codes is becoming increasingly difficult, and existing tools fall short in revealing the root causes of performance problems. We have developed the HAC model, which allows us to directly compare the data across domains and use data visualization and analysis tools available in other domains.

Fast Global File Status (FGFS) is an open-source package that provides scalable mechanisms and programming interfaces to retrieve global information of a file.

A comprehensive understanding of the performance behavior of large-scale simulations requires the ability to compile, analyze, and compare measurements and contexts from many independent sources. Caliper, a general-purpose application introspection system, makes that task easier by connecting various independent context annotations, measurement services, and data processing services.

Livermore researchers are enhancing HARVEY, an open-source parallel fluid dynamics application designed to model blood flow in patient-specific geometries.

MPI_T is an interface for tools introduced in the 3.0 version of MPI. The interface provides mechanisms for tools to access and set performance and control variables that are exposed by an MPI implementation.

Cram lets you easily run many small MPI jobs within a single, large MPI job by splitting MPI_COMM_WORLD up into many small communicators to run each job in the cram file independently.

libMSR provides a convenient interface to access Model Specific Registers and to allow tools to utilize their full functionality.

Spindle improves the library-loading performance of dynamically linked HPC applications. It plugs into the system’s dynamic linker and intercepts its file operations so that only one process (or other small amount) will perform the file operations necessary and share the results with other processes in the job.

PⁿMPI is a thin, low-overhead wrapper library that is automatically generated from mpi.h file and that can be linked by default.

The Livermore Metagenomic Analysis Toolkit (LMAT) is a genome sequencing technology that helps accelerate the comparison of genetic fragments with reference genomes and improve the accuracy of the results as compared to previous technologies. It tracks approximately 25 billion short sequences and is currently being evaluated for potential operational use in global biosurveillance and microbial forensics by various federal agencies.

AutomaDeD is a tool that automatically diagnoses performance and correctness faults in MPI applications. It has two major functionalities: identifying abnormal MPI tasks and code regions and finding the least-progressed task. The tool produces a ranking of MPI processes by their abnormality degree and specifies the regions of code where faults are first manifested.

A new, complex memory/storage hierarchy is emerging, with persistent memories offering greatly expanded capacity, and augmented by DRAM/SRAM cache and scratchpads to mitigate latency.

To overcome the shortcomings of the analytical and architectural approaches to performance modeling and evaluation, we are developing techniques that emulate the behavior of anticipated future architectures on current machines.

With SCR, jobs run more efficiently, recover more work upon failure, and reduce load on critical shared resources.

The scalable multigrid reduction in time (XBraid) approach constructs coarse time grids and uses each coarse time scale solution to improve the next finer-scale solution, ultimately yielding an iterative scheme that simultaneously updates in parallel a solution guess over the entire space-time domain.

Peter Robinson develops major infrastructure components and code development processes for ALE3D, a numerical simulation tool.

Todd Gamblin leads the PAVE project, which develops performance data visualization techniques that are more intuitive for application scientists.