Search NASA⌕ Search

SEARCH · Search NASA

Results for “parallel file system”

Search indexed NASA NTRS and DOE OSTI research on propulsion, heat transfer, battery materials and energy systems. Follow report and document links to the original sources.

Quote a phrase for an exact phrase match. Source license links do not imply unrestricted reuse.

At least 19 records

Formal Definitions and Performance Comparison of Consistency Models for Parallel File Systems

The semantics of HPC storage systems are defined by the consistency models to which they abide. Storage consistency models have been less studied than their counterparts in memory systems, with the exception of the POSIX standard and its strict consistency model. The use of POSIX consistency imposes a performance penalty that becomes more significant as the scale of parallel file systems increases and the access time to storage devices, such as node-local solid storage devices, decreases. While some efforts have been made to adopt relaxed storage consistency models, these models are often defined informally and ambiguously as by-products of a particular implementation. Here in this work, we establish a connection between memory consistency models and storage consistency models and revisit the key design choices of storage consistency models from a high-level perspective. Further, we propose a formal and unified framework for defining storage consistency models and a layered implementation that can be used to easily evaluate their relative performance for different I/O workloads. Finally, we conduct a comprehensive performance comparison of two relaxed consistency models on a range of commonly seen parallel I/O workloads, such as checkpoint/restart of scientific applications and random reads of deep learning applications. We demonstrate that for certain I/O scenarios, a weaker consistency model can significantly improve the I/O performance. For instance, in small random reads that are typically found in deep learning applications, session consistency achieved a 5x improvement in I/O bandwidth compared to commit consistency, even at small scales.

97 MATHEMATICS AND COMPUTING↗

Collection of Disk Failure Events from Alpine, the Parallel File System for Summit Supercomputer

This dataset contains disk (HDD) failure events collected from the Alpine storage system of the Summit supercomputer, hosted at OLCF, spanning from January 4, 2019, to December 21, 2023 (a total of 4 years, 11 months, and 18 days), covering 89% of its operational lifetime. It includes 3,766 disk failure events, each recorded with its detection timestamp (in ISO 8601 format) and detailed by its location within the storage system - rack, enclosure, and drive slot number.

97 MATHEMATICS AND COMPUTING↗

Leveraging Pre-Built Catalogs and Object-Level Scheduling to Eliminate I/O Bottlenecks in HPC Environments

Modern High-Performance Computing (HPC) environments face mounting challenges due to the shift from large to small file datasets, along with an increasing number of users and parallelized applications. As HPC systems rely on Parallel File Systems (PFS), such as Lustre for data processing, performance bottlenecks stemming from Object Storage Target (OST) contention have become a significant concern. Existing solutions, such as LADS with its object-level scheduling approach, fall short in large-scale HPC environments due to their inability to effectively address metadata I/O bottlenecks and the growing number of I/O processes. This study highlights the pressing need for a comprehensive solution that tackles both OST contention and metadata I/O challenges in diverse HPC workloads. To address these challenges, we propose SwiftLoad, an object-level I/O scheduling framework that leverages a metadata catalog to enhance the performance and efficiency of parallel HPC utilities. The adoption of the metadata catalog mitigates the metadata I/O bottlenecks that commonly occur in HPC utilities, a challenge that is particularly pronounced in object-level I/O scheduling. SwiftLoad addresses OST contention and the uneven distribution of I/O processes across different OSTs through mathematical modeling and incorporates a Loader Configuration Module to regulate the number of I/O processes. Evaluated with two representative utilities—data deduplication profiling and data augmentation—SwiftLoad achieved performance improvements of up to 5.63x and 11.0x, respectively, on a production supercomputer.

HPC↗

Multi-Node Program Fuzzing on High Performance Computing Resources

Significant effort is placed on tuning the internal parameters of fuzzers to explore the state space, measured as coverage, of binaries. In this work, we investigate the effects of the external environment on the resulting coverage after fuzzing two binaries with AFL for 24 hours. Parameters such as scaling to multiple nodes, node saturation, and parallel file system type on HPC resources are controlled in order to maximize coverage. It will be shown that employing a parallel file system such as IBM's General Parallel File System offers an advantage for fuzzing operations, since it contains enhancements for performance optimization. When combined with scaling to two and four nodes, while simultaneously restricting the number of coordinated AFL tasks per node on the low end (10-50% of available physical cores), coverage may be enhanced within a shorter period of time. Thus, controlling the external environment is a useful effort.

97 MATHEMATICS AND COMPUTING↗

Management and Storage of Scientific Data

Scientific discoveries rely heavily on efficient access, search, and management of massive data sets. Data management technologies have, for decades, provided foundational capabilities for scientific computing. Just as storage, input/output (I/O), and data management have been fundamental to simulation-based science for many years, so too are capable data-management technologies key to the success of today’s scientific workflows utilizing data intensive and machine learning (ML) techniques. The Department of Energy, Office of Science, Advanced Scientific Computing Research (ASCR) program has invested broadly in data-management research focused on high-performance computing (HPC) systems, from parallel file systems that store data to application software that makes these systems more productive. Still, advances in technology combined with growing diversity of supported science strongly motivate continued investment in this area. In January 2022, ASCR convened a workshop to identify priority research directions in the area of data management for high-performance and scientific computing. Attendees were challenged to identify promising approaches that would support the breadth of the DOE mission, including the explosion of artificial intelligence (AI) uses and the growing needs of experimental and observational science. Technological and science drivers were identified and considered as they relate to key aspects of data management such as interfaces, architectural design, and FAIR principles (Findable, Accessible, Interoperable, and Reusable). The thoughts of the workshop participants were distilled into a set of four priority research directions with the potential for high impact on DOE science. These research directions are summarized in the following pages.

96 KNOWLEDGE MANAGEMENT AND PRESERVATION↗

Orchestrating Fault Prediction with Live Migration and Checkpointing

Checkpoint/Restart (C/R) is widely used to provide fault tolerance on High-Performance Computing (HPC) systems. However, Parallel File System (PFS) overhead and failure uncertainty cause significant application overhead. This paper develops an adaptive multi-level C/R model that incorporates a failure prediction and analysis model, which orchestrates failure prediction, checkpointing, checkpoint frequency, and proactive live migration along with the additional benefit of Burst Buffers (BB). It effectively reduces the overheads due to failures, checkpointing, and recovery. Simulation results for the Summit supercomputer yield a reduction of ~20%-86% in application overhead due to BBs, orchestrated failure prediction, and migration. We also observe a ~29% decrease in checkpoint writes to BBs, which can increase the longevity of the BB storage devices.

Behera, Subhendu↗

Toward a persistent event-streaming system for high-performance computing applications

High-performance computing (HPC) applications have traditionally relied on parallel file systems and file transfer services to manage data movement and storage. Alternative approaches have been proposed that use direct communications between application components, trading persistence and fault tolerance for speed. Event-driven architectures, as popularized in enterprise contexts, present a compelling middle ground, avoiding the performance cost and API constraints of parallel file systems while retaining persistence and offering impedance matching between application components. However, adapting streaming frameworks to HPC workloads requires addressing challenges unique to HPC systems. This paper investigates the potential for a streaming framework designed for HPC infrastructures and use cases. We introduce Mofka, a persistent event-streaming framework designed specifically for HPC environments. Mofka combines the capabilities of a traditional streaming service with optimizations tailored to the HPC context, such as support for massively multicore nodes, efficient scaling for large producer-consumer workflows, RDMA-enabled high-performance network communications, specialized network fabrics with multiple links per node, and efficient handling of large scientific data payloads. Built using the Mochi suite of HPC data service components, Mofka provides a lightweight, modular, and high-performance solution for persistent streaming in HPC systems. We present the architecture of Mofka and evaluate its performance against Kafka and Redpanda using benchmarks on diverse platforms, including Argonne's Polaris and Oak Ridge's Frontier supercomputers, showing up to 8× improvement in throughput in some scenarios. We then demonstrate its utility in several real-world applications: a tomographic reconstruction pipeline, a workflow for the discovery of metal-organic frameworks for carbon capture, and the instrumentation of Dask workflows for provenance tracking and performance analysis.

HPC↗

FitCache: A Transparent Drop-In Framework for Multi-Tier Caching to Accelerate Distributed Deep Learning Workloads

Training in Deep learning (DL) remains highly compute- and data-intensive, with I/O becoming a critical bottleneck as models and datasets scale. Recent studies report that data loading can dominate training time, especially on large-scale HPC systems with shared parallel file systems (PFS). Existing caching approaches either rely on single-tier designs or require intrusive modifications to training pipelines, limiting their portability and effectiveness. In this work, we present FitCache, a transparent drop-in framework for multi-tier caching to accelerate distributed DL training by coordinating fast local memory (e.g., DRAM, Persistent Memory (PMem)) and NVMe as hierarchical caches atop PFS. Our design adapts to hardware diversity, i.e., if NVMe is missing, memory transparently acts as a caching tier, ensuring stable performance. FitCache transparently intercepts I/O requests and issues concurrent fetches across all tiers, returning data from the fastest responder without centralized metadata or static redirection paths. FitCache adapts to dynamic workloads and heterogeneous clusters while maintaining POSIX compatibility. Experiments on Frontier (2048 GPUs) and smaller research clusters show that FitCache reduces training time by up to 40% and per-batch I/O latency by up to 71.6% compared to Lustre Orion PFS, offering a drop-in solution for scalable DL training.

Hu, Guangxing [ORNL] (ORCID:0009000283203614)↗

Adaptive multi-level checkpointing

In some examples, with respect to adaptive multi-level checkpointing, a transfer parameter associated with transfer of checkpoint data from a node-local storage to a parallel file system may be ascertained for the checkpoint data stored in the node-local storage. The transfer parameter may be compared to a specified transfer parameter threshold. A determination may be made, based on the comparison of the transfer parameter to the specified transfer parameter threshold, as to whether to transfer the checkpoint data from the node-local storage to the parallel file system.

97 MATHEMATICS AND COMPUTING↗

I/O Bottleneck Detection and Tuning: Connecting the Dots using Interactive Log Analysis

Using parallel file systems efficiently is a tricky problem due to inter-dependencies among multiple layers of I/O software, including high-level I/O libraries (HDF5, netCDF, etc.), MPI-IO, POSIX, and file systems (GPFS, Lustre, etc.). Profiling tools such as Darshan collect traces to help understand the I/O performance behavior. However, there are significant gaps in analyzing the collected traces and then applying tuning options offered by various layers of I/O software. Seeking to connect the dots between I/O bottleneck detection and tuning, we propose DXT Explorer, an interactive log analysis tool. In this paper, we present a case study using our interactive log analysis tool to identify and apply various I/O optimizations. We report an evaluation of performance improvement achieved for four I/O kernels extracted from science applications.

Bez, Jean Luca↗

Large Scale Caching and Streaming of Training Data for Online Deep Learning

The training of deep neural network models on large data remains a difficult problem, despite progress towards scalable techniques. In particular, there is a mismatch between the random but predetermined order in which AI flows select training samples and the streaming I/O patterns for which traditional HPC data storage (e.g., parallel file systems) are designed. In addition, as more data are obtained, it is feasible neither simply to train learning models incrementally, due to catastrophic forgetting (i.e., bias towards new samples), nor to train frequently from scratch, due to prohibitive time and/or resource constraints. In this paper, we study data management techniques that combine caching and streaming with rehearsal support in order to enable efficient access to training samples in both offline training and continual learning. We revisit state-of-art streaming approaches based on data pipelines that transparently handle prefetching, caching, shuffling, and data augmentation, and discuss the challenges and opportunities that arise when combining these methods with data-parallel training techniques. We also report on preliminary experiments that evaluate the I/O overheads involved in accessing the training samples from a parallel file system (PFS) under several concurrency scenarios, highlighting the impact of the PFS on the design of the data pipelines.

data pipelines↗

Containers for Massive Ensemble of I/O Bound Hierarchical Coupled Simulations

We present our experience using containers to scale up a massive ensemble of coupled I/O bound workloads on the NERSC Cori supercomputer. We describe the design of a hierarchical simulation structure using the Integrated Plasma Simulator (IPS) that enables the flexible execution of coupled simulations at the system, node, and core level using the same coupling abstraction and API. The hierarchical design allows for the node-level execution to be efficiently executed using containers while not impacting the structure of the simulation at the system level. We demonstrate the viability of the approach by presenting experimental results from applications in coupled fusion plasma simulations that illustrate the performance impact of using containers to deploy the node-level workloads, in conjunction with the user mountable XFS file systems to ameliorate the load on the Lustre parallel file system. We also present results from production runs showing the ability of the ensemble simulations to scale to hundreds of Cori Haswell nodes, with little or no overhead.

Elwasif, Wael↗

VerifyIO: Ensuring Correctness of Consistency Semantics in Parallel I/O

Abstract—High-performance computing (HPC) applications generate and consume substantial amounts of data, typically managed by parallel file systems. These applications access file systems either through the POSIX interface or by using highlevel I/O libraries. While the POSIX consistency model remains dominant in HPC, emerging file systems and popular I/O libraries increasingly adopt alternative consistency models that relax semantics in various ways, creating significant challenges for correctness and portability. This paper addresses these challenges by proposing a trace-driven I/O consistency verification workflow, implemented in our open-source tool, VerifyIO, which collects execution traces, detects data conflicts, and verifies proper synchronization against specified consistency models. Our extensive evaluation of 91 test case executions across three widely used I/O libraries with four I/O consistency models reveals critical consistency issues at both application and implementation levels.

Consistency Semantics↗

h5bench: A unified benchmark suite for evaluating HDF5 I/O performance on pre‐exascale platforms

Summary Parallel I/O is a critical technique for moving data between compute and storage subsystems of supercomputers. With massive amounts of data produced or consumed by compute nodes, high‐performant parallel I/O is essential. I/O benchmarks play an important role in this process; however, there is a scarcity of I/O benchmarks representative of current workloads on HPC systems. Toward creating representative I/O kernels from real‐world applications, we have created h5bench , a set of I/O kernels that exercise hierarchical data format version 5 (HDF5) I/O on parallel file systems in numerous dimensions. Our focus on HDF5 is due to the parallel I/O library's heavy usage in various scientific applications running on supercomputing systems. The various tests benchmarked in the h5bench suite include I/O operations (read and write), data locality (arrays of basic data types and arrays of structures), array dimensionality (one‐dimensional arrays, two‐dimensional meshes, three‐dimensional cubes), I/O modes (synchronous and asynchronous). In this paper, we present the observed performance of h5bench executed along several of these dimensions on existing supercomputers (Cori and Summit) and pre‐exascale platforms (Perlmutter, Theta, and Polaris). h5bench measurements can be used to identify performance bottlenecks and their root causes and evaluate I/O optimizations. As the I/O patterns of h5bench are diverse and capture the I/O behaviors of various HPC applications, this study will be helpful to the broader supercomputing and I/O community.

97 MATHEMATICS AND COMPUTING↗