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At least 649 records · Page 36

Representations of Materials for Machine Learning

High-throughput data generation methods and machine learning (ML) algorithms have given rise to a new era of computational materials science by learning the relations between composition, structure, and properties and by exploiting such relations for design. However, to build these connections, materials data must be translated into a numerical form, called a representation, that can be processed by an ML model. Data sets in materials science vary in format (ranging from images to spectra), size, and fidelity. Predictive models vary in scope and properties of interest. Here, we review context-dependent strategies for constructing representations that enable the use of materials as inputs or outputs for ML models. Furthermore, we discuss how modern ML techniques can learn representations from data and transfer chemical and physical information between tasks. Finally, we outline high-impact questions that have not been fully resolved and thus require further investigation.

36 MATERIALS SCIENCE↗

Toward a Fully Resolved Fungal Tree of Life

In this review, we discuss the current status and future challenges for fully elucidating the fungal tree of life. In the last 15 years, advances in genomic technologies have revolutionized fungal systematics, ushering the field into the phylogenomic era. This has made the unthinkable possible, namely access to the entire genetic record of all known extant taxa. Here, we first review the current status of the fungal tree and highlight areas where additional effort will be required. We then review the analytical challenges imposed by the volume of data and discuss methods to recover the most accurate species tree given the sea of gene trees. Highly resolved and deeply sampled trees are being leveraged in novel ways to study fungal radiations, species delimitation, and metabolic evolution. Finally, we discuss the critical issue of incorporating the unnamed and uncultured dark matter taxa that represent the vast majority of fungal diversity.

systematics↗

A Vision for the Science of Rare Isotopes

The field of nuclear science has considerably advanced since its beginning just over a century ago. Today, the science of rare isotopes is on the cusp of a new era with theoretical and computing advances complementing experimental capabilities at new facilities internationally. In this article we present a vision for the science of rare isotope beams (RIBs). We do not attempt to cover the full breadth of the field; rather, we provide a perspective and address a selection of topics that reflect our own interests and expertise. We focus in particular on systems near the drip lines, where one often finds nuclei that are referred to as exotic and where the role of the nuclear continuum is only just starting to be explored. An important aspect of this article is its attempt to highlight the crucial connections between nuclear structure and the nuclear reactions required to fully interpret and leverage the rich data to be collected in the next years at RIB facilities. Further, we connect the efforts in structure and reactions to key questions of nuclear astrophysics.

07 ISOTOPE AND RADIATION SOURCES↗

Serial2Parallel

In the era of machine learning, we often need to run the same code/script many times with little or no variations (e.g., performance evaluation, data preprocessing, data generation, hyperparameter tuning, etc.). It is not a problem when you just need to do that a few times, but when the number of repetitions becomes very large, it can be a daunting task. The code “Serial2Parallel” provides an easy way for users to be able to run many numbers of any serial code/scripts in a parallel manner across multiple nodes in an message passing interface (MPI) cluster. The code includes the server program that deals with task pool management and client program that processes task. The server gets the tasks ready and waits for clients' connections. The client code pulls tasks from the server and processes them. The client code will run in parallel.

Sangkeun, MattLee↗

ornladios/ADIOS2

ADIOS 2: The Adaptable Input Output (I/O) System version 2 is an open-source framework that addresses scientific data management challenges, e.g. scalable parallel I/O, as we approach the exascale era in high-performance computing (HPC). ADIOS 2 bindings are available in C++, C, Fortran, Python and can be used on supercomputers, personal computers, and cloud systems running on Linux, macOS and Windows. ADIOS 2 has out-of-the-box support for MPI and serial environments.

ECP↗

MSU Disentanglement Analysis Software

This software is used to disentangle the forced-versus-unforced components of tropospheric temperature change over the satellite era (after 1979) using maps of surface temperature change as a predictor. In general, the software assembles training datasets (from pre-computed surface temperature trend maps and domain averaged tropospheric warming rates), trains statistical/machine learning (ML) algorithms, applies the trained statistical/ML model to climate model data and observations, and then saves the results. A leave-one-out approach is used in which the statistical/ML models are iteratively trained on (N- 1) climate model and then applied to the remaining climate model (and observations). Each model includes a large ensemble (i.e., >10) of model simulations. The software relies on scikit-learn ridge regression, PLS regression, and neural network algorithms.

Po-Chedley, StephenD↗

Predicting September Arctic Sea Ice: A Multimodel Seasonal Skill Comparison

This study quantifies the state of the art in the rapidly growing field of seasonal Arctic sea ice prediction. A novel multimodel dataset of retrospective seasonal predictions of September Arctic sea ice is created and analyzed, consisting of community contributions from 17 statistical models and 17 dynamical models. Prediction skill is compared over the period 2001–20 for predictions of pan-Arctic sea ice extent (SIE), regional SIE, and local sea ice concentration (SIC) initialized on 1 June, 1 July, 1 August, and 1 September. This diverse set of statistical and dynamical models can individually predict linearly detrended pan-Arctic SIE anomalies with skill, and a multimodel median prediction has correlation coefficients of 0.79, 0.86, 0.92, and 0.99 at these respective initialization times. Regional SIE predictions have similar skill to pan-Arctic predictions in the Alaskan and Siberian regions, whereas regional skill is lower in the Canadian, Atlantic, and central Arctic sectors. The skill of dynamical and statistical models is generally comparable for pan-Arctic SIE, whereas dynamical models outperform their statistical counterparts for regional and local predictions. The prediction systems are found to provide the most value added relative to basic reference forecasts in the extreme SIE years of 1996, 2007, and 2012. SIE prediction errors do not show clear trends over time, suggesting that there has been minimal change in inherent sea ice predictability over the satellite era. Overall, this study demonstrates that there are bright prospects for skillful operational predictions of September sea ice at least 3 months in advance.

54 ENVIRONMENTAL SCIENCES↗

Differential credibility assessment for statistical downscaling

Climate science is increasingly using (i) ensembles of climate projections from multiple models derived using different assumptions and/or scenarios and (ii) process-oriented diagnostics of model fidelity. Efforts to assign differential credibility to projections and/or models are also rapidly advancing. A framework to quantify and depict the credibility of statistically downscaled model output is presented and demonstrated. Here, the approach employs transfer functions in the form of robust and resilient generalized linear models applied to downscale daily minimum and maximum temperature anomalies at 10 locations using predictors drawn from ERA-Interim reanalysis and two global climate models (GCM; GFDL-ESM2M and MPI-ESM-LR). The downscaled time series are used to derive several impact relevant CLIMDEX temperature indices that are assigned credibility based on (1) the reproduction of relevant large-scale predictors by the GCMs (i.e. fraction of regression beta-weights derived from predictors that are well-reproduced) and (2) the degree of variance in the observations reproduced in the downscaled series following application of a new variance inflation technique. Credibility of the downscaled predictands varies across locations, between the two GCM and is generally higher for minimum temperature than maximum temperature. The differential credibility assessment framework demonstrated here is easy to use and flexible. It can be applied as is to inform decision makers regarding projection confidence, and/or extended to include other components of the transfer functions, and/or used to weight members of a statistically downscaled ensemble.

54 ENVIRONMENTAL SCIENCES↗

Representation of the Convectively Coupled Kelvin Waves in Modern Reanalysis Products

Abstract This study aims to deepen our understanding of the destabilization mechanisms and the mean-state modulation of the convectively coupled Kelvin waves (CCKWs) while testing simple models for CCKWs. We examine CCKW precipitation, vertical structure, and energetics in four modern reanalyses: the fifth version of ECMWF Reanalysis (ERA5), NASA Modern-Era Retrospective Analysis for Research and Applications, version 2 (MERRA-2), the second version of the NCEP Climate Forecast System Reanalysis (CFSR), and the Japanese 55-year Reanalysis (JRA-55). The CCKW precipitation signal strength in the wavenumber–frequency domain and the geographical distribution of CCKW precipitation variability are reasonably represented in all reanalyses, although they commonly underestimate the amplitude of CCKW precipitation. Despite considerable interreanalysis differences in the vertical structure of temperature and diabatic heating anomalies, the eddy available potential energy (EAPE) generation within the CCKWs is found to be associated with the second baroclinic mode whereas the first baroclinic mode damps CCKW EAPE in three out of four reanalyses. Geographically, strong CCKW activity occurs in the areas of high mean-state sea surface temperature (SST), where the second mode EAPE generation is higher, mainly due to a stronger stratiform heating and a tighter wave–convection coupling. Our results are supportive of the simple models for CCKWs in which CCKWs are destabilized within the second baroclinic mode component.

Meteorology & Atmospheric Sciences↗

Response of Global SSTs and ENSO to the Atlantic and Pacific Meridional Overturning Circulations

Consequences from a slowdown or collapse of the Atlantic meridional overturning circulation (AMOC) could include modulations to El Niño–Southern Oscillation (ENSO) and development of the Pacific meridional overturning circulation (PMOC). Despite potential ramifications to the global climate, our understanding of the influence of various AMOC and PMOC states on ENSO and global sea surface temperatures (SSTs) remains limited. Five multicentennial, fully coupled model simulations created with the Community Earth System Model were used to explore the influence of AMOC and PMOC on global SSTs and ENSO. We found that the amplitude of annual cycle SSTs across the tropical Pacific decreases and ENSO amplitude increases as a result of an AMOC shutdown, irrespective of PMOC development. However, active deep overturning circulations in both the Atlantic and Pacific basins reduce ENSO amplitude and variance of monthly SSTs globally. Furthermore, the underlying physical reasons for changes to global SSTs and ENSO are also discussed, with the atmospheric and oceanic mechanisms that drive changes to ENSO amplitude differing based on PMOC state. These results suggest that if climate simulations projecting AMOC weakening are realized, compounding climate impacts could occur given the far-reaching ENSO teleconnections to extreme weather and climate events. More broadly, these results provide us with insight into past geologic era climate states, when PMOC was active.

54 ENVIRONMENTAL SCIENCES↗

East Asian Rainbands and Associated Circulation over the Tibetan Plateau Region

Abstract Rainbands that migrate northward from spring to summer are persistent features of the East Asian summer monsoon. This study employs a machine learning algorithm to identify individual East Asian rainbands from May to August in the 6-hourly ERA-Interim reanalysis product and captures rainband events during these months for the period 1979–2018. The median duration of rainband events at any location in East Asia is 12 h, and the centroids of these rainbands move northward continuously from approximately 28°N in late May to approximately 33°N in July, instead of making jumps between quasi-stationary periods. Whereas the length and overall area of the rainbands grow monotonically from May to June, the intensity of the rainfall within the rainband dips slightly in early June before it peaks in late June. We find that extratropical northerly winds on all pressure levels over East China are the most important anomalous flow accompanying the rainband events. The anomalous northerlies augment climatological background northerlies in bringing low moist static energy air and thus generate the front associated with the rainband. Persistent lower-tropospheric southerly winds bring in moisture that feeds the rainband and are enhanced a few days prior to rainband events, but they are not directly tied to the actual rainband formation. The background northerlies could originate as part of the Rossby waves resulting from the jet stream interaction with the Tibetan Plateau. The ageostrophic circulation in the jet entrance region peaks in May and weakens in June and July and does not prove to be critical to the formation of the rainbands.

54 ENVIRONMENTAL SCIENCES↗

The Influence of Anomalous Biomass Emissions on ENSO in CESM2

Abstract The influence of biomass burning (BB) aerosols arising from wildfires and agricultural fires on the transient coupled evolution of El Niño–Southern Oscillation (ENSO) is explored in Community Earth System Model, version 2 (CESM2). For both El Niño and La Niña, two 20-member ensembles are generated from initial states that are predisposed to evolve into ENSO events. For each ENSO phase, one ensemble is forced with the observed BB emissions during satellite-era ENSO events while the other is forced with a climatological annual cycle, with the responses to anomalous BB emissions estimated from interensemble differences. It is found that the regional responses to anomalous BB emissions occur mainly during boreal fall, which is also the time of the climatological seasonal maximum in emissions. Transient responses are identified in precipitation, clouds, and radiation in both the tropics and extratropics. At the onset of El Niño, these include increased precipitation in the northern branch of the intertropical convergence zone (ITCZ) and an enhancement of cloud albedo and amount across the Maritime Continent and eastern subtropical Pacific Ocean. Additional responses are identified through the course of El Niño and successive La Niña events, the net effect of which is to strengthen sea surface temperature (SST) anomalies in the eastern Pacific Ocean during El Niño and warm the tropical Pacific Ocean during La Niña. These responses improve the simulation of ENSO power, diversity, and asymmetry in CESM2. Significance Statement Biomass burning emissions from both wildfires and agricultural fires during ENSO act as a climate feedback, as they are both driven by fire weather anomalies tied to ENSO and influence clouds, radiation, and precipitation on a global scale. While the largest biomass burning (BB) emissions emanate mainly from Indonesia, other regions also exhibit systematic responses. When simulated in CESM2, the emissions collectively impact the flows of energy across the tropical Pacific Ocean in a spatially and temporally complex fashion, with the net effect of improving CESM2’s simulation of ENSO events.

Fasullo, John T. [National Center for Atmospheric ↗

The Strength of Coupling to the Southern Ocean Modulates Tropical Eastern Pacific Variability and Forced Response

Despite rising global-mean temperatures, large parts of the Southern Ocean and tropical eastern Pacific Ocean have cooled during the satellite era. These regions may be linked by teleconnections, with Southern Ocean cooling contributing to tropical eastern Pacific cooling. We demonstrate that, on average, state-of-the-art Earth system models (ESMs) underestimate the magnitude of interaction between the Southern Ocean and tropical eastern Pacific Ocean. The strength of the teleconnection is shown to be mediated by the magnitude of the positive cloud–sea surface temperature (SST) feedback in the subtropical eastern Pacific Ocean and the strength of the wind–evaporation–SST (WES) feedback. We link excessive precipitation in the tropical Pacific south of the equator to the strength of the Southern Ocean–eastern Pacific teleconnection. This model bias, known as the double intertropical convergence zone (ITCZ), is shown to be related to erroneous convection south of the equator, weakened cross-equatorial trade winds, and unfavorable meteorological conditions for marine boundary layer subtropical clouds. We postulate there is a two-way interaction, in which a double-ITCZ occurs with weaker cloud–SST and WES feedbacks, which in turn impact local SSTs and amplify the double-ITCZ. Models with a stronger Southern Ocean to tropical Pacific teleconnection tend to exhibit more multidecadal variability in the Walker circulation, ITCZ, and west–east equatorial SST gradient, as well as greater delayed warming in the tropical eastern Pacific Ocean resulting from delayed Southern Ocean warming under greenhouse gas forcing. These results provide insight into why ESMs struggle to replicate observed tropical Pacific temperature trend patterns and point to ITCZ location as a key target for improvement in future model development.

Climate change↗

Evaluating asynchronous Schwarz solvers on GPUs

With the commencement of the exascale computing era, we realize that the majority of the leadership supercomputers are heterogeneous and massively parallel. Even a single node can contain multiple co-processors such as GPUs and multiple CPU cores. For example, ORNL’s Summit accumulates six NVIDIA Tesla V100 GPUs and 42 IBM Power9 cores on each node. Synchronizing across compute resources of multiple nodes can be prohibitively expensive. Hence, it is necessary to develop and study asynchronous algorithms that circumvent this issue of bulk-synchronous computing. In this study, we examine the asynchronous version of the abstract Restricted Additive Schwarz method as a solver. We do not explicitly synchronize, but allow the communication between the sub-domains to be completely asynchronous, thereby removing the bulk synchronous nature of the algorithm. We accomplish this by using the one-sided Remote Memory Access (RMA) functions of the MPI standard. We study the benefits of using such an asynchronous solver over its synchronous counterpart. We also study the communication patterns governed by the partitioning and the overlap between the sub-domains on the global solver. Finally, we show that this concept can render attractive performance benefits over the synchronous counterparts even for a well-balanced problem.

Nayak, Pratik↗

Orchestration of materials science workflows for heterogeneous resources at large scale

In the era of big data, materials science workflows need to handle large-scale data distribution, storage, and computation. Any of these areas can become a performance bottleneck. We present a framework for analyzing internal material structures (e.g., cracks) to mitigate these bottlenecks. We demonstrate the effectiveness of our framework for a workflow performing synchrotron X-ray computed tomography reconstruction and segmentation of a silica-based structure. Our framework provides a cloud-based, cutting-edge solution to challenges such as growing intermediate and output data and heavy resource demands during image reconstruction and segmentation. Specifically, our framework efficiently manages data storage, scaling up compute resources on the cloud. The multi-layer software structure of our framework includes three layers. A top layer uses Jupyter notebooks and serves as the user interface. A middle layer uses Ansible for resource deployment and managing the execution environment. A low layer is dedicated to resource management and provides resource management and job scheduling on heterogeneous nodes (i.e., GPU and CPU). At the core of this layer, Kubernetes supports resource management, and Dask enables large-scale job scheduling for heterogeneous resources. The broader impact of our work is four-fold: through our framework, we hide the complexity of the cloud’s software stack to the user who otherwise is required to have expertise in cloud technologies; we manage job scheduling efficiently and in a scalable manner; we enable resource elasticity and workflow orchestration at a large scale; and we facilitate moving the study of nonporous structures, which has wide applications in engineering and scientific fields, to the cloud. While we demonstrate the capability of our framework for a specific materials science application, it can be adapted for other applications and domains because of its modular, multi-layer architecture.

97 MATHEMATICS AND COMPUTING↗

ECP libraries and tools: An overview

The Exascale Computing Project (ECP) Software Technology and Co-Design teams addressed the growing complexities in high-performance computing (HPC) by developing scalable software libraries and tools that leverage exascale system capabilities. As we enter the exascale era, the need for reusable, optimized software solutions that can handle the unique challenges posed by these systems becomes increasingly important. The primary challenges the ECP teams faced were to create software libraries and tools that are performant on exascale architectures and portable and usable across diverse hardware platforms. Efforts addressed issues related to concurrent execution, memory management, and the integration of heterogeneous computing resources, such as GPUs from multiple vendors. The ECP’s strategy involved a structured development process encompassing the creation, optimization, and deployment of software in collaboration with industry, academia, and national laboratories. The project was organized into several technical areas: co-design of domain-specific suites with target applications, programming models and runtimes, development tools, mathematical libraries, data and visualization tools, and software ecosystem and delivery mechanisms. ECP has successfully developed a large portfolio of software libraries and tools that demonstrate significant improvements in performance and scalability on exascale systems. These products have been integrated into the Department of Energy’s computing facilities, supporting various scientific applications and ensuring robust performance across different hardware setups. ECP advancements in software development for exascale computing highlight the importance of a collaborative and adaptive approach to handling next-generation HPC systems complexities. The lessons learned emphasize the need for continuous engagement with end-users and vendors, and the importance of maintaining a balance between innovation and practical implementation. Future efforts will focus on ensuring scalability, keeping pace with rapid hardware advancements, and further enhancing the interoperability and usability of the software ecosystem. In conclusion, subsequent articles in this special issue provide in-depth discussions and case studies into specific library and tool efforts.

97 MATHEMATICS AND COMPUTING↗

Preparing MPICH for exascale

The advent of exascale supercomputers heralds a new era of scientific discovery, yet it introduces significant architectural challenges that must be overcome for MPI applications to fully exploit its potential. Among these challenges is the adoption of heterogeneous architectures, particularly the integration of GPUs to accelerate computation. Additionally, the complexity of multithreaded programming models has also become a critical factor in achieving performance at scale. The efficient utilization of hardware acceleration for communication, provided by modern NICs, is also essential for achieving low latency and high throughput communication in such complex systems. In response to these challenges, the MPICH library, a high-performance and widely used Message Passing Interface (MPI) implementation, has undergone significant enhancements. Here, this paper presents four major contributions that prepare MPICH for the exascale transition. First, we describe a lightweight communication stack that leverages the advanced features of modern NICs to maximize hardware acceleration. Second, our work showcases a highly scalable multithreaded communication model that addresses the complexities of concurrent environments. Third, we introduce GPU-aware communication capabilities that optimize data movement in GPU-integrated systems. Finally, we present a new datatype engine aimed at accelerating the use of MPI derived datatypes on GPUs. These improvements in the MPICH library not only address the immediate needs of exascale computing architectures but also set a foundation for exploiting future innovations in high-performance computing. By embracing these new designs and approaches, MPICH-derived libraries from HPE Cray and Intel were able to achieve real exascale performance on OLCF Frontier and ALCF Aurora respectively.

Guo, Yanfei [Argonne National Laboratory (ANL), Ar↗

Parallelizing autotuning for HPC applications: Unveiling the potential of the speculation strategy in Bayesian optimization

In the exascale computing era, tuning High-Performance Computing (HPC) applications has become a significant computational challenge. Although Bayesian optimization (BO) has emerged as a promising tool for HPC performance tuning, the BO workflow is inherently sequential (i.e., one function evaluation at a time) and cannot leverage the huge amount of parallel resources present in modern supercomputers, resulting in a considerable underutilization of their computational capabilities. This paper explores the trade-off between search quality and parallelism in BO, investigating a diverse set of methods. Building upon both previous approaches from the literature and novel methodologies introduced in this work, our study provides a deep analysis to accelerate BO performance tuning. By examining a set of synthetic functions and practical HPC applications, our exploration analyzes the interaction among various BO methods for parallelization, the quantity of parallel resources, the runtime distribution of target HPC applications, and the costs associated with different search orchestration mechanisms that have been overlooked in previous studies. Compared to sequential BO, our novel methodology achieves comparable quality while demonstrating robust scalability in search time as the amount of parallel resources increases; it also outperforms a state-of-the-art tuner, which supports parallelization, achieving up to 3.67x faster search time. We provide high-value insights for practitioners seeking to leverage the power of parallel computing for efficient HPC application tuning. Additionally, to further assist researchers in accelerating the performance tuning of their HPC applications, we provide an extension of an existing open-source tuning framework that incorporates our methods.

Bayesian optimization↗