Do you want to publish a course? Click here

The Petascale DTN Project: High Performance Data Transfer for HPC Facilities

140   0   0.0 ( 0 )
 Added by Eli Dart
 Publication date 2021
and research's language is English




Ask ChatGPT about the research

The movement of large-scale (tens of Terabytes and larger) data sets between high performance computing (HPC) facilities is an important and increasingly critical capability. A growing number of scientific collaborations rely on HPC facilities for tasks which either require large-scale data sets as input or produce large-scale data sets as output. In order to enable the transfer of these data sets as needed by the scientific community, HPC facilities must design and deploy the appropriate data transfer capabilities to allow users to do data placement at scale. This paper describes the Petascale DTN Project, an effort undertaken by four HPC facilities, which succeeded in achieving routine data transfer rates of over 1PB/week between the facilities. We describe the design and configuration of the Data Transfer Node (DTN) clusters used for large-scale data transfers at these facilities, the software tools used, and the performance tuning that enabled this capability.



rate research

Read More

Data engineering is becoming an increasingly important part of scientific discoveries with the adoption of deep learning and machine learning. Data engineering deals with a variety of data formats, storage, data extraction, transformation, and data movements. One goal of data engineering is to transform data from original data to vector/matrix/tensor formats accepted by deep learning and machine learning applications. There are many structures such as tables, graphs, and trees to represent data in these data engineering phases. Among them, tables are a versatile and commonly used format to load and process data. In this paper, we present a distributed Python API based on table abstraction for representing and processing data. Unlike existing state-of-the-art data engineering tools written purely in Python, our solution adopts high performance compute kernels in C++, with an in-memory table representation with Cython-based Python bindings. In the core system, we use MPI for distributed memory computations with a data-parallel approach for processing large datasets in HPC clusters.
The FFT of three-dimensional (3D) input data is an important computational kernel of numerical simulations and is widely used in High Performance Computing (HPC) codes running on a large number of processors. Performance of many scientific applications such as Molecular Dynamic simulations depends on the underlying 3D parallel FFT library being used. In this paper, we present C-DACs three-dimensional Fast Fourier Transform (CROFT) library which implements three-dimensional parallel FFT using pencil decomposition. To exploit the hyperthreading capabilities of processor cores without affecting performance, CROFT is designed to use multithreading along with MPI. CROFT implementation has an innovative feature of overlapping compute and memory-I/O with MPI communication using multithreading. As opposed to other 3D FFT implementations, CROFT uses only two threads where one thread is dedicated for communication so that it can be effectively overlapped with computations. Thus, depending on the number of processes used, CROFT achieves performance improvement of about 51% to 42% as compared to FFTW3 library.
Performance and energy are the two most important objectives for optimisation on modern parallel platforms. Latest research demonstrated the importance of workload distribution as a decision variable in the bi-objective optimisation for performance and energy on homogeneous multicore clusters. We show in this work that bi-objective optimisation for performance and energy on heterogeneous processors results in a large number of Pareto-optimal optimal solutions (workload distributions) even in the simple case of linear performance and energy profiles. We then study performance and energy profiles of real-life data-parallel applications and find that their shapes are non-linear, complex and non-smooth. We, therefore, propose an efficient and exact global optimisation algorithm, which takes as an input most general discrete performance and dynamic energy profiles of the heterogeneous processors and solves the bi-objective optimisation problem. The algorithm is also used as a building block to solve the bi-objective optimisation problem for performance and total energy. We also propose a novel methodology to build discrete dynamic energy profiles of individual computing devices, which are input to the algorithm. The methodology is based purely on system-level measurements and addresses the fundamental challenge of accurate component-level energy modelling of a hybrid data-parallel application running on a heterogeneous platform integrating CPUs and accelerators. We experimentally validate the proposed method using two data-parallel applications, matrix multiplication and 2D fast Fourier transform (2D-FFT).
Performance tools for forthcoming heterogeneous exascale platforms must address two principal challenges when analyzing execution measurements. First, measurement of extreme-scale executions generates large volumes of performance data. Second, performance metrics for heterogeneous applications are significantly sparse across code regions. To address these challenges, we developed a novel streaming aggregation approach to post-mortem analysis that employs both shared and distributed memory parallelism to aggregate sparse performance measurements from every rank, thread and GPU stream of a large-scale application execution. Analysis results are stored in a pair of sparse formats designed for efficient access to related data elements, supporting responsive interactive presentation and scalable data analytics. Empirical analysis shows that our implementation of this approach in HPCToolkit effectively processes measurement data from thousands of threads using a fraction of the compute resources employed by the application itself. Our approach is able to perform analysis up to 9.4 times faster and store analysis results 23 times smaller than HPCToolkit, providing a key building block for scalable exascale performance tools.
Data-intensive applications are becoming commonplace in all science disciplines. They are comprised of a rich set of sub-domains such as data engineering, deep learning, and machine learning. These applications are built around efficient data abstractions and operators that suit the applications of different domains. Often lack of a clear definition of data structures and operators in the field has led to other implementations that do not work well together. The HPTMT architecture that we proposed recently, identifies a set of data structures, operators, and an execution model for creating rich data applications that links all aspects of data engineering and data science together efficiently. This paper elaborates and illustrates this architecture using an end-to-end application with deep learning and data engineering parts working together.
comments
Fetching comments Fetching comments
Sign in to be able to follow your search criteria
mircosoft-partner

هل ترغب بارسال اشعارات عن اخر التحديثات في شمرا-اكاديميا