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All sourcesNASA NTRSDOE OSTI
DOE OSTI2014

A Global View Programming Abstraction for Transitioning MPI Codes to PGAS Languages

The multicore generation of scientific high performance computing has provided a platform for the realization of Exascale computing, and has also underscored the need for new paradigms in coding parallel applications. The current standard for writing parallel applications requires programmers to use languages designed for sequential execution. These languages have abstractions that only allow programmers to operate on the process centric local view of data. To provide suitable languages for parallel execution, many research efforts have designed languages based on the Partitioned Global Address Space (PGAS) programming model. Chapel is one of the more recent languages to be developed using this model. Chapel supports multithreaded execution with high-level abstractions for parallelism. With Chapel in mind, we have developed a set of directives that serve as intermediate expressions for transitioning scientific applications from languages designed for sequential execution to PGAS languages like Chapel that are being developed with parallelism in mind.

Global Domain↗
DOE OSTI2014

UPC++: A PGAS extension for C++

Partitioned Global Address Space (PGAS) languages are convenient for expressing algorithms with large, random-access data, and they have proven to provide high performance and scalability through lightweight one-sided communication and locality control. While very convenient for moving data around the system, PGAS languages have taken different views on the model of computation, with the static Single Program Multiple Data (SPMD) model providing the best scalability. In this paper we present UPC++, a PGAS extension for C++ that has three main objectives: 1) to provide an object-oriented PGAS programming model in the context of the popular C++ language, 2) to add useful parallel programming idioms unavailable in UPC, such as asynchronous remote function invocation and multidimensional arrays, to support complex scientific applications, 3) to offer an easy on-ramp to PGAS programming through interoperability with other existing parallel programming systems (e.g., MPI, OpenMP, CUDA). We implement UPC++ with a 'compiler-free' approach using C++ templates and runtime libraries. We borrow heavily from previous PGAS languages and describe the design decisions that led to this particular set of language features, providing significantly more expressiveness than UPC with very similar performance characteristics. We evaluate the programmability and performance of UPC++ using five benchmarks on two representative supercomputers, demonstrating that UPC++ can deliver excellent performance at large scale up to 32K cores while offering PGAS productivity features to C++ applications.

Zheng, Y↗
DOE OSTI2023

A Fine-grained Asynchronous Bulk Synchronous parallelism model for PGAS applications

The Partitioned Global Address Space (PGAS) model is well suited for executing irregular applications on cluster-based systems, due to its efficient support for short, one-sided messages. Separately, the actor model has been gaining popularity as a productive asynchronous message-passing approach for distributed objects in enterprise and cloud computing platforms, typically implemented in languages such as Erlang, Scala or Rust. To the best of our knowledge, there has been no past work on using the actor model to deliver both productivity and scalability to irregular PGAS applications with large number of small messages. In this paper, we introduce a new programming system for PGAS applications, in which point-to-point remote operations can be expressed as fine-grained asynchronous actor messages. In our approach, the programmer does not need to worry about programming complexities related to message aggregation and termination detection. Our approach can be viewed as extending the classical Bulk Synchronous Parallelism model with fine-grained asynchronous communications within a phase or superstep. Here, we believe that our approach offers a desirable point in the productivity-performance space for PGAS applications, with more scalable performance and higher productivity relative to past approaches. Specifically, for seven irregular mini-applications from the Bale Kernels and three graph kernels executed using 2048 cores in the NERSC Cori system, our approach shows geometric mean performance improvements of ≥ 20X relative to standard PGAS versions (UPC and OpenSHMEM) while maintaining comparable productivity to those versions.

97 MATHEMATICS AND COMPUTING↗
DOE OSTI2013

Scalable PGAS Metadata Management on Extreme Scale Systems

Programming models intended to run on exascale systems have a number of challenges to overcome, specially the sheer size of the system as measured by the number of concurrent software entities created and managed by the underlying runtime. It is clear from the size of these systems that any state maintained by the programming model has to be strictly sub-linear in size, in order not to overwhelm memory usage with pure overhead. A principal feature of Partitioned Global Address Space (PGAS) models is providing easy access to global-view distributed data structures. In order to provide efficient access to these distributed data structures, PGAS models must keep track of metadata such as where array sections are located with respect to processes/threads running on the HPC system. As PGAS models and applications become ubiquitous on very large transpetascale systems, a key component to their performance and scalability will be efficient and judicious use of memory for model overhead (metadata) compared to application data. We present an evaluation of several strategies to manage PGAS metadata that exhibit different space/time tradeoffs. We use two real-world PGAS applications to capture metadata usage patterns and gain insight into their communication behavior.

Global Arrays↗
DOE OSTI2014

On the Suitability of MPI as a PGAS Runtime

Partitioned Global Address Space (PGAS) models are emerging as a popular alternative to MPI models for designing scalable applications. At the same time, MPI remains a ubiquitous communication subsystem due to its standardization, high performance, and availability on leading platforms. In this paper, we explore the suitability of using MPI as a scalable PGAS communication subsystem. We focus on the Remote Memory Access (RMA) communication in PGAS models which typically includes {\em get, put,} and {\em atomic memory operations}. We perform an in-depth exploration of design alternatives based on MPI. These alternatives include using a semantically-matching interface such as MPI-RMA, as well as not-so-intuitive interfaces such as MPI two-sided with a combination of multi-threading and dynamic process management. With an in-depth exploration of these alternatives and their shortcomings, we propose a novel design which is facilitated by the data-centric view in PGAS models. This design leverages a combination of highly tuned MPI two-sided semantics and an automatic, user-transparent split of MPI communicators to provide asynchronous progress. We implement the asynchronous progress ranks approach and other approaches within the Communication Runtime for Exascale which is a communication subsystem for Global Arrays. Our performance evaluation spans pure communication benchmarks, graph community detection and sparse matrix-vector multiplication kernels, and a computational chemistry application. The utility of our proposed PR-based approach is demonstrated by a 2.17x speed-up on 1008 processors over the other MPI-based designs.

Computational modeling↗
DOE OSTI2014

Evaluation of PGAS communication paradigms with geometric multigrid

Partitioned Global Address Space (PGAS) languages and one-sided communication enable application developers to select the communication paradigm that balances the performance needs of applications with the productivity desires of programmers. In this paper, we evaluate three different one-sided communication paradigms in the context of geometric multigrid using the miniGMG benchmark. Although miniGMG's static, regular,and predictable communication does not exploit the ultimate potential of PGAS models, multigrid solvers appear in many contemporary applications and represent one of the most important communication patterns. We use UPC++, a PGAS extension of C++, as the vehicle for our evaluation, though our work is applicable to any of the existing PGAS languages and models. We compare performance with the highly tuned MPI baseline, and the results indicate that the most promising approach towards achieving performance and ease of programming is to use high-level abstractions, such as the multidimensional arrays provided by UPC++, that hide data aggregation and messaging in the runtime library.

Shan, H↗
DOE OSTI2019

Graph Algorithms in PGAS: Chapel and UPC++

The Partitioned Global Address Space (PGAS) programming model can be implemented «««< HEAD either with programming language features or with runtime library APIs, each implementation favoring different aspects (e.g., productivity, abstraction, flexibility, or performance). Certain language and runtime features, such as collectives, explicit and asynchronous communication primitives, and constructs facilitating overlap of communication and computation (such as futures and conjoined futures) can enable better performance and scaling for irregular applications, in particular for distributed graph analytics. We compare graph algorithms in one of each of these environments: the Chapel PGAS programming language and the UPC++ PGAS runtime library. We implement algorithms for breadth-first search and triangle counting graph kernels in both environments. We discuss the code in each of the environments, and compile performance data on a Cray Aries and an Infiniband platform. Our results show that the library-based approach of UPC++ currently provides strong performance while Chapel provides a high-level abstraction that, harder to optimize, still provides comparable performance. We argue that various language primitives and runtime library features should be considered in conjunction with each other to design future graph analytics libraries so as to incorporate the best of both worlds.

Distributed Algorithms, Graph algorithms, HPC↗
DOE OSTI2024

Lamellar: A Rust-based Asynchronous Tasking and PGAS Runtime for High Performance Computing

Cybersecurity is one of the largest concerns in modern computing, impacting and dictating how governments, private corporations, and individuals interact with and live in an increasingly digital world. The NSA has recently released a memo [ 1] on “Software Memory Safety” where they highlight that both Microsoft and Google have stated around 70% of software vulnerabilities were due to memory safety issues. Although languages such as C and C++ provide freedom and flexibility with memory management, guaran- teeing safety falls mostly on the developer. The NSA recommends using “memory safe” languages whenever possible. In this paper we introduce Lamellar, an asynchronous tasking and PGAS HPC runtime written in Rust, one such "memory safe" language. We describe the entire Lamellar stack, from network interfaces to high- level abstractions such as distributed LamellarArrays and Active Messages. We conclude by showing comparable performance to legacy PGAS runtimes (e.g. OpenSHMEM) on a subset of the BALE kernel suite while maintaining strong memory safety principles.

HPC Software Systems, Rust Programming Language, P↗
DOE OSTI2016

Hybrid-view programming of nuclear fusion simulation code in the PGAS parallel programming language XcalableMP

Recently, the Partitioned Global Address Space (PGAS) parallel programming model has emerged as a usable distributed memory programming model. XcalableMP (XMP) is a PGAS parallel programming language that extends base languages such as C and Fortran with directives in OpenMP-like style. XMP supports a global-view model that allows programmers to define global data and to map them to a set of processors, which execute the distributed global data as a single thread. In XMP, the concept of a coarray is also employed for local-view programming. In this study, we port Gyrokinetic Toroidal Code - Princeton (GTC-P), which is a three-dimensional gyrokinetic PIC code developed at Princeton University to study the microturbulence phenomenon in magnetically confined fusion plasmas, to XMP as an example of hybrid memory model coding with the global-view and local-view programming models. In local-view programming, the coarray notation is simple and intuitive compared with Message Passing Interface (MPI) programming while the performance is comparable to that of the MPI version. Thus, because the global-view programming model is suitable for expressing the data parallelism for a field of grid space data, we implement a hybrid-view version using a global-view programming model to compute the field and a local-view programming model to compute the movement of particles. Finally, the performance is degraded by 20% compared with the original MPI version, but the hybrid-view version facilitates more natural data expression for static grid space data (in the global-view model) and dynamic particle data (in the local-view model), and it also increases the readability of the code for higher productivity.

97 MATHEMATICS AND COMPUTING↗
DOE OSTI2021

GASNet-EX Memory Kinds: Support for Device Memory in PGAS Programming Models

There is an emerging need for adaptive, lightweight communication in irregular HPC applications at exascale, where GPU accelerators provide the majority of available compute cycles. To address this need, Lawrence Berkeley National Lab is developing a programming system to support distributed-memory HPC application development using the Partitioned Global Address Space (PGAS) model. This work includes two major components: UPC++ and GASNet-EX. UPC++ is a C++ template library providing Remote Memory Access (RMA) and Remote Procedure Call (RPC) communication interfaces. GASNet-EX is a portable, high-performance communication middleware library, used by the implementations of UPC++ and many other PGAS programming models. We describe recent advances in GASNet-EX to efficiently implement zero-copy Remote Memory Access (RMA) communication to and from memory on accelerator devices such as GPUs. We demonstrate performance improvements via benchmark results from UPC++ (on Summit) and the Legion programming system (on DGX-1), both using GASNet-EX for communication.

Hargrove, Paul H↗
DOE OSTI2013

Building Scalable PGAS Communication Subsystem on Blue Gene/Q

This paper presents a design of scalable Partitioned Global Address Space (PGAS) communication subsystems on recently proposed Blue Gene/Q architecture. The proposed design provides an in-depth modeling of communication infrastructure using Parallel Active Messaging Interface (PAMI). The communication infrastructure is used to design time-space efficient communication protocols for frequently used data-types (contiguous, uniformly non-contiguous) using Remote Direct Memory Access (RDMA) get/put primitives. The proposed design accelerates load balance counters by using asynchronous threads, which are required due to the missing network hardware support for Atomic Memory Operations (AMOs). Under the proposed design, the synchronization traffic is reduced by tracking conflicting memory accesses in distributed space with slightly increment in space complexity. An evaluation with simple communication benchmarks show a adjacent node get latency of 2.89$\mu$s and peak bandwidth of 1775 MB/s resulting in $\approx$ 99\% communication efficiency.The evaluation shows a reduction in the execution time by up to 30\% for NWChem self consistent field calculation on 4096 processes using the proposed asynchronous thread based design.

Vishnu, Abhinav↗
DOE OSTI2014

OpenSHMEM Reference Implementation using UCCS-uGNI Transport Layer. In: PGAS '14 Proceedings of the 8th International Conference on Partitioned Global Address Space Programming Models, Article No. 18

OpenSHMEM is a library interface implementation and specification that enables the implementation of the Partitioned Global Address Space (PGAS) model. It exports modern RDMA network functionality and communication semantics to applications very efficiently. There are many closed source implementations of OpenSHMEM for modern RDMA interconnects such as InfiniBand and Cray's Gemini and Aries. Given the important role that Cray systems play in HPC, in this paper, we present an open source implementation of OpenSHMEM for Cray XE/XK/XC systems. To implement OpenSHMEM, we use the uGNI interface. uGNI is a generic interface that is designed for multiple programming models. The interface fits well the goal of UCCS. Having OpenSHMEM with UCCS-uGNI allows usage of the same implementation over multiple interconnects. This also translates into many advantages that come with common code such as resource sharing, increasing productivity because of less code maintenance, etc. Preliminary results show that OpenSHMEM-UCCS performs comparable to state-of-the-art Cray SHMEM for Put, Get, and AMO operations.

Janjusic, Tomislav↗
DOE OSTI2014

Fault Tolerance for OpenSHMEM. In: PGAS '14 Proceedings of the 8th International Conference on Partitioned Global Address Space Programming Models. Article No. 23

On today's supercomputing systems, faults are becoming a norm rather than an exception. Given the complexity required for achieving expected scalability and performance on future systems, this situation is expected to become worse. The systems are expected to function in a nearly constant presence of faults. To be productive on these systems, programming models will require both hardware and software to be resilient to faults. With the growing importance of PGAS programming model and OpenSHMEM, as a part of HPC software stack, a lack of a fault tolerance model may become a liability for its users. Towards this end, in this paper, we discuss the viability of using checkpoint/restart as a fault-tolerance method for OpenSHMEM, propose a selective checkpoint/restart fault-tolerance model, and discuss challenges associated with implementing the proposed model.

Hao, Pengfei↗
DOE OSTI2021

SV-Sim: Scalable PGAS-based State Vector Simulation of Quantum Circuits

High-performance quantum circuit simulation in a classic HPC is still imperative in the NISQ era. Observing that the major obstacle of scalable state-vector quantum simulation arises from the massively fine-grained irregular data-exchange with remote nodes, in this paper we present SV-Sim to apply the emerging PGAS-based communication models (i.e., direct peer access for intra-node CPUs/GPUs and SHMEM for inter-node CPU/GPU clusters) for efficient scalable quantum circuit simulation. Through an orchestrated device functional pointer design, SV-Sim is able to abstract the quantum gate sets across various heterogeneous backends, including IBM/Intel/AMD CPUs, NVIDIA /AMD GPUs, and Intel MIC, in a unified framework, but still asserting outstanding performance and tractable interface to higher-level quantum programming environments, such as IBM Qiskit, Microsoft Q\# and Google Cirq. Circumventing the disability of polymorphism in GPUs and leveraging the device-initiated one-sided communication, SV-Sim can process dynamically synthesized quantum circuit in a single GPU/CPU kernel without the need of expensive JIT or runtime branching, significantly improving the performance and simplifying the programming complexity for the emerging variational quantum algorithms. Evaluations on NVIDIA A100-DGX-1, V100-DGX-2, AMD MI100, ALCF Theta, and OLCF Summit HPCs show that SV-Sim can delivery scalable performance on various state-of-the-art HPC platforms, offering a useful tool for quantum algorithm validation and verification.

Li, Ang↗
DOE OSTI2021

Integrating PGAS and MPI-based Graph Analysis

This project demonstrates that Chapel programs can interface with MPI-based libraries written in C++ without storing multiple copies of shared data. Chapel is a language for productive parallel computing using global address spaces (PGAS). We identified two approaches to interface Chapel code with the MPI-based Grafiki and Trilinos libraries. The first uses a single Chapel executable to call a C function that interacts with the C++ libraries. The second uses the mmap function to allow separate executables to read and write to the same block of memory on a node. We also encapsulated the second approach in Docker/Singularity containers to maximize ease of use. Comparisons of the two approaches using shared and distributed memory installations of Chapel show that both approaches provide similar scalability and performance.

97 MATHEMATICS AND COMPUTING↗
DOE OSTI2025

Quantifying Message Aggregation Optimisations for Energy Savings in PGAS Models

Upon breaking past the exascale barrier, HPC systems are facing their greatest challenge yet - a power wall that must be addressed through new methods in both hardware and software. While energy costs are becoming a major issue at all levels, of particular concern is that of the network, as the relative cost of moving data is increasing faster than ever. The partitioned global address space (PGAS) model is critical within certain HPC domains, but is known to suffer from the small message problem, where irregular many-to-many access patterns result in congesting the network with excessive numbers of small messages. To address this, the conveyor aggregation library was developed to defer individual messages and group them for subsequent bulk processing. In this paper, we investigate its impact on energy use related to the network, with a focus on the Slingshot 11 interconnect. We will demonstrate that this strategy is not only highly performant, but also crucial to reducing energy footprints to remain within target power envelopes.

Welch, Aaron [ORNL]↗