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DOE OSTI2024

Improved Characterization of Soil Organic Matter by Integrating FT-ICR MS, Liquid Chromatography Tandem Mass Spectrometry, and Molecular Networking: A Case Study of Root Litter Decay under Drought Conditions

Understanding of how soil organic matter (SOM) chemistry is altered in a changing climate has advanced considerably; however, most SOM components remain unidentified, impeding the ability to characterize a major fraction of organic matter and predict what types of molecules, and from which sources, will persist in soil. Here we present a novel approach to better characterize SOM extracts by integrating information from three types of analyses, and we deploy this method to characterize decaying root-detritus soil microcosms subjected to either drought or normal conditions. To observe broad differences in composition, we employed direct infusion Fourier-transform ion cyclotron resonance mass spectrometry (DI-FT-ICR MS). We complemented this with liquid chromatography tandem mass spectrometry (LC-MS/MS) to identify components by library matching. Since libraries contain only a small fraction of SOM components, we also used fragment spectral cosine similarity scores to relate unknowns and library matches through molecular networks. This integrated approach allowed us to corroborate DI-FT-ICR MS molecular formulas using library matches, which included fungal metabolites and related polyphenolic compounds. We also inferred structures of unknowns from molecular networks and improved LC-MS/MS annotation rates from ~5 to 35% by considering DI-FT-ICR MS molecular formula assignments. Under drought conditions, we found greater relative amounts of lignin-like vs condensed aromatic polyphenol formulas and lower average nominal oxidation state of carbon, suggesting reduced decomposition of SOM and/or microbes under stress. Our integrated approach provides a framework for enhanced annotation of SOM components that is more comprehensive than performing individual data analyses in parallel.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

DOE OSTI2024

Nanoscale Probing of Electrical Memory Effects in van der Waals Layered PdSe 2

Tunable electronic materials that can be switched between different impedance states are fundamental to the hardware elements for neuromorphic computing architectures. This “brain-like” computing paradigm uses highly paralleled and colocated data processing, leading to greatly improved energy efficiency and performance compared to traditional architectures in which data have to be frequently transferred between processor and memory. In this work, we use scanning microwave impedance microscopy for nanoscale electrical and electronic characterization of two-dimensional layered semiconductor PdSe 2 to probe neuromorphic properties. The local resolution of tens of nanometers reveals significant differences in electronic behavior between and within PdSe 2 nanosheets (NSs). In particular, we detected both n-type and p-type behaviors, although previous reports only point to ambipolar n-type dominating characteristics. Nanoscale capacitance–voltage curves and subsequent calculation of characteristic maps revealed a hysteretic behavior originating from the creation and erasure of Se vacancies as well as the switching of defect charge states. In addition, stacks consisting of two NSs show enhanced resistive and capacitive switching, which is attributed to trapped charge carriers at the interfaces between the stacked NSs. Stacking n- and p-type NSs results in a combined behavior that allows one to tune electrical characteristics. In conclusion, as local inhomogeneities of electrical and electronic behavior can have a significant impact on the overall device performance, the demonstrated nanoscale characterization and analysis will be applicable to a wide range of semiconducting materials.

2D material↗

DOE OSTI2020

Stepped pressure equilibrium with relaxed flow and applications in reversed-field pinch plasmas

The multi-region relaxed magnetohydrodynamics (MRxMHD) has been successful in the construction of equilibria in three-dimensional (3D) configurations. In MRxMHD, the plasma is sliced into sub-volumes separated by ideal interfaces, each undergoing relaxation, allowing the formation of islands and chaos. The resulting equilibrium has a stepped pressure profile across sub-volumes. The stepped pressure equilibrium code (SPEC) was developed to calculate MRxMHD equilibria numerically. In this work, we have extended the SPEC code to compute MRxMHD equilibria with field-aligned flow and rotation, following the theoretical development to incorporate cross-helicity and angular momentum constraints. The code has been verified for convergence and compared to a Grad–Shafranov solver in 2D. We apply our new tool to study the flow profile change before and after the sawtooth crash of a reversed-field pinch discharge, in which data of the parallel flow is available. We find the promising result that under the constraints of cross-helicity and angular momentum, the parallel flow profile in post-crash SPEC equilibrium is flat in the plasma core and the amplitude of the flow matches experimental observations. Lastly, we provide an example equilibrium with a 3D helical field structure as the favored lower energy state. This will be the first 3D numerical equilibrium in which the flow effects are self-consistently calculated.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

DOE OSTI2020

SQUARE: Strategic Quantum Ancilla Reuse for Modular Quantum Programs via Cost-Effective Uncomputation

Compiling high-level quantum programs to machines that are size constrained (i.e. limited number of quantum bits) and time constrained (i.e. limited number of quantum operations) is challenging. In this paper, we present SQUARE (Strategic QUantum Ancilla REuse), a compilation infrastructure that tackles allocation and reclamation of scratch qubits (called ancilla) in modular quantum programs. At its core, SQUARE strategically performs uncomputation to create opportunities for qubit reuse. Current Noisy Intermediate-Scale Quantum (NISQ) computers and forward-looking Fault-Tolerant (FT) quantum computers have fundamentally different constraints such as data locality, instruction parallelism, and communication overhead. Our heuristic-based ancilla-reuse algorithm balances these considerations and fits computations into resource-constrained NISQ or FT quantum machines, throttling parallelism when necessary. To precisely capture the workload of a program, we propose an improved metric, the "active quantum volume," and use this metric to evaluate the effectiveness of our algorithm. Furthermore, our results show that SQUARE improves the average success rate of NISQ applications by 1.47X. Surprisingly, the additional gates for uncomputation create ancilla with better locality, and result in substantially fewer swap gates and less gate noise overall. SQUARE also achieves an average reduction of 1.5X (and up to 9.6X) in active quantum volume for FT machines.

compiler optimization↗

DOE OSTI2019

A Cooperative Multi-Agent Deep Reinforcement Learning Framework for Real-Time Residential Load Scheduling

Internet-of-Things (IoT) enabled monitoring and control capabilities are enabling increasing numbers of household users with controllable loads to actively participate in smart grid energy management. Realizing an efficient real-time energy management system that takes advantage of these developments requires novel techniques for managing the increased complexity of the control action space in resolving multiple challenges such as the uncertainty in energy prices and renewable energy output along with the need to satisy physical grid constraints such as transformer capacity. Addressing these challenges, we develop a multi-household energy management framework for residential units connected to the same transformer and containing DERs such as PV, ESS and controllable loads. The goal of our framework is to schedule controllable household appliances and ESS such that the cost of procuring electricity from the utility over a horizon is minimized while physical grid constraints are satisfied at each scheduling step. Traditional energy management frameworks either perform global optimization to satisfy grid constraints but suffer from high computational complexity (for example Integer Program, Mixed Integer Programming frameworks and centralized reinforcement learning) or perform decentralized real-time energy management without satisfying global grid constraints (for example multi-agent reinforcement learning with no cooperation). In contrast, we propose a cooperative multiagent reinforcement learning (MARL) framework that i) operates in real-time, and ii) performs explicit collaboration to satisfy global grid constraints. The novelty in our framework is two fold. Firstly, our framework trains multiple independent learners (IL) for each household in parallel using historical data and performs real-time inferencing of control actions using the most recent system state. Secondly, our framework contains a low complexity knapsack based cooperation agent which combines the outputs of ILs to minimize cost while satisfying grid constraints. Simulation results show that our cooperative MARL approach achieves significant cost improvement over centralized reinforcement learning and day-ahead planning baselines. Moreover, our approach strictly satisfies physical constraints with no apriori knowledge of system dynamics while the baseline approaches have occasional violations. We also measure the training and inference time by ranging the number of households from 1 to 25. Results show that our cooperative MARL approach scales best among various approaches.

14 SOLAR ENERGY↗

DOE OSTI2016

SIERRA Toolkit v. 2.0

The SIERRA Toolkit is a collection of libraries to facilitate the development of parallel engineering analysis applications. These libraries supply basic core services that an engineering application may need such as a parallel distributed and dynamic mesh database (for unstructured meshes), mechanics algorithm support (parallel infrastructure only), interfaces to parallel solvers, parallel mesh and data I/O, and various utilities (timers, diagnostic tools, etc.)

Coffey, Todd↗

DOE OSTI2024

Long-term Multimodal Recording Reveals Epigenetic Adaptation Routes in Dormant Breast Cancer Cells

Patients with estrogen receptor–positive breast cancer receive adjuvant endocrine therapies (ET) that delay relapse by targeting clinically undetectable micrometastatic deposits. Yet, up to 50% of patients relapse even decades after surgery through unknown mechanisms likely involving dormancy. To investigate genetic and transcriptional changes underlying tumor awakening, we analyzed late relapse patients and longitudinally profiled a rare cohort treated with long-term neoadjuvant ETs until progression. Next, we developed an in vitro evolutionary study to record the adaptive strategies of individual lineages in unperturbed parallel experiments. Our data demonstrate that ETs induce nongenetic cell state transitions into dormancy in a stochastic subset of cells via epigenetic reprogramming. Single lineages with divergent phenotypes awaken unpredictably in the absence of recurrent genetic alterations. Targeting the dormant epigenome shows promising activity against adapting cancer cells. Overall, this study uncovers the contribution of epigenetic adaptation to the evolution of resistance to ETs.

60 APPLIED LIFE SCIENCES↗

DOE OSTI2019

First Ever Polymer Flood Field Pilot - A Game Changer to Enhance the Recovery of Heavy Oils on Alaska’s North Slope

The development pace of Alaska’s vast, 20-25 billion barrels, heavy oil resources has been very slow due to high development costs and low oil recovery using conventional waterflood, and the impracticality of deploying thermal methods due to the presence of continuous permafrost. Although, polymer flooding has attracted attention and has become a promising EOR technique in heavy oil reservoirs due to the extensive application of horizontal wells and advancement of polymer flooding technology, no field tests have been performed to date in Alaska’s underdeveloped heavy oil reservoirs. The overall objective of this research is to perform a field experiment to validate the use of polymer flooding for extracting heavy oil in Alaska’s challenging environment. Two pre-existing pairs of horizontal injection and production wells in an isolated fault block of the Schrader Bluff heavy oil reservoir at the Milne Point Field are currently being used for the field experiment. Hydrolyzed polyacrylamide (HPAM) polymer injection started on August 28, 2018 at 600 ppm (4 cP viscosity) concentration ramping up to 1,800 ppm (45 cP viscosity) over a three week time period, and has been maintained at an average concentration of ~1,800 ppm. Current injection rates in the two horizontal injectors are ~2,200 and 600 bwpd. Laboratory experiments to determine the polymer retention, optimum water salinity, synergistic effects of water salinity and polymer, and handling of produced fluids, in support of the field experiment, are currently ongoing. Similarly, reservoir simulation of coreflood behavior and history match of previous waterfloods to predict polymer flood performance in the project area are also conducted in parallel. The field data and scientific knowledge that have been collected since the start of the injection indicates that the field pilot is performing as predicted. To date, no unexpected injectivity issues or polymer breakthrough have been encountered, and the two horizontal producers are showing positive response to the polymer injection, resulting in incremental increase in oil production rate. Since the research is still in its early stages, selected field, laboratory and simulation results are presented and discussed to highlight the integrative approach adopted in this first ever polymer flood field pilot in Alaska.

02 PETROLEUM↗

DOE OSTI2015

A Polyhedral Transformation Framework for Compiler Optimization (Final Project Report)

The project developed the polyhedral compiler transformation module PolyOpt/Fortran in the ROSE compiler framework. PolyOpt/Fortran performs automated transformation of affine loop nests within FORTRAN programs for enhanced data locality and parallel execution. A FORTAN version of the Polybench library was also developed by the project. A third development was a dynamic analysis approach to gauge vectorization potential within loops of programs; software (DDVec) for automated instrumentation and dynamic analysis of programs was developed.

97 MATHEMATICS AND COMPUTING↗

DOE OSTI2017

Trinity Phase 2 Open Science: CTH

CTH is an Eulerian hydrocode developed by Sandia National Laboratories (SNL) to solve a wide range of shock wave propagation and material deformation problems. Adaptive mesh refinement is also used to improve efficiency for problems with a wide range of spatial scales. The code has a history of running on a variety of computing platforms ranging from desktops to massively parallel distributed-data systems. For the Trinity Phase 2 Open Science campaign, CTH was used to study mesoscale simulations of the hypervelocity penetration of granular SiC powders. The simulations were compared to experimental data. A scaling study of CTH up to 8192 KNL nodes was also performed, and several improvements were made to the code to improve the scalability.

97 MATHEMATICS AND COMPUTING↗

DOE OSTI2018

Partnership For Edge Physics Simulation

In this effort, we will extend our prior work as part of CPES (i.e., DART and DataSpaces) to support in-situ tight coupling between application codes that exploits data locality and core-level parallelism to maximize on-chip data exchange and reuse. This will be accomplished by mapping coupled simulations so that the data exchanges are more localized within the nodes. Coupled simulation workflows can more effectively utilize the resources available on emerging HEC platforms if they can be mapped and executed to exploit data locality as well as the communication patterns between application components. Scheduling and running such workflows requires an extended framework that should provide a unified hybrid abstraction to enable coordination and data sharing across computation tasks that run on the heterogeneous multi-core-based systems, and develop a data-locality based dynamic tasks scheduling approach to increase on-chip or intra-node data exchanges and in-situ execution. This effort will extend our prior work as part of CPES (i.e., DART and DataSpaces), which provided a simple virtual shared-space abstraction hosted at the staging nodes, to support application coordination, data sharing and active data processing services. Moreover, it will transparently manage the low-level operations associated with the inter-application data exchange, such as data redistributions, and will enable running coupled simulation workflow on multi-cores computing platforms.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

DOE OSTI2019

Mobility Data and Models Informing Smart Cities

Using emerging data platforms, new mobility technologies, and travel demand models (TDMs), researchers, industry, and communities seek to improve the quality of transportation while maximizing the energy efficiency, equity, and safety of transportation services. As transportation may soon reach over 30% of U.S. energy consumption and with urban areas representing an increasing proportion of the U.S. population (>80% since 2010), a critical need exists to engage in urban data science-informed approaches to enhancing mobility. The objective of this study is to explore and document how aspiring Smart Cities are using data and models to inform mobility and energy initiatives within Smart City programs and in so doing identify gaps in knowledge and processes guiding Smart City mobility investment strategies, programs, projects, and pilots. A primary focus of the Smart Cities studied was the creation of an integrated data sharing environment approach. Most of these systems are being developed in parallel with multiple new data analysis tools, while regional metropolitan planning organizations continue to slowly evolve TDMs to take into account impacts of long-term strategies for emerging mobility technologies and services. Smart City initiatives in the United States have keen interests in leveraging knowledge and research on the mobility benefits and risks of automated, connected, efficient/electric, and shared on-demand mobility services; and understanding the related energy, environmental, economic, and societal impacts of these shifts. The results serve to identify key gaps in data, knowledge, and methods required to advance energy efficient urban mobility innovation, and to enable research and analysis collaboration between Smart Cities and the U.S. Department of Energy's efforts enabling new Systems and Modeling for Accelerated Research in Transportation (SMART) Mobility.

33 ADVANCED PROPULSION SYSTEMS↗

DOE OSTI2020

Decarburization and Carburization Behavior of Grade 91 Steel in Sodium Environments

Two heats of G91 steel have been investigated in sodium at 550-650°C to understand its corrosion behaviour, microstructural evolution, and tensile properties. Sodium exposure tests of subsized tensile and coupon specimens of G91 base metal and weldment were conducted in Argonne’s forced convection sodium materials testing loops. Maximum exposure times of ~39,000 h at 550°C, ~37,000 h at 600°C, and ~20,000 h at 650°C have been achieved, respectively. Thermal aging experiments of G91 steel were conducted in parallel, and the data of the sodium-exposed specimens were compared with the thermal aging data of the same heat to isolate the thermal aging effect from the effect of sodium exposure. It was found that the tensile strength of G91 steel can be reduced by more than 50% after sodium exposures at 650°C. The effect of a sodium environment on tensile properties is largely dependent on the carburization/decarburization behavior of G91 steel exposed to sodium. The carbon concentrations in sodium in Argonne’s SMT-1 and SMT-2 loops were determined by the equilibration method. The carbon activity in sodium was established by equilibrating high-purity nickel in sodium, analyzing the material for carbon, and using the reported data on the carbon solubility for this material. The carbon activity results were combined with the carbon solubility data in sodium to establish the carbon concentration in sodium. The carbon concentrations in the SMT-1 and SMT-2 loop were estimated to be 1.23 and 0.25 ppm, respectively. With this initial success, we will continue to monitor the carbon contents in the two loops to correlate the microstructural and mechanical property changes with the sodium purity. Future experiments will also consider sodium exposure tests in controlled carbon activities. Online monitoring and control of carbon contents in sodium in nuclear reactors would also be of interest. Thermodynamic analysis was conducted to understand the carburization-decarburization behavior of G91 steel exposed to sodium in the SMT-1 and SMT-2 loops. The equilibrium carbon activity in the alloy was evaluated by the thermodynamics of M 23 C 6 carbides. The calculated carburization-decarburization boundary showed that G91 would undergo decarburization at 650°C in the SMT-1 loop and carburization at 600°C in the SMT-2 loop, which is consistent with our findings from the sodium exposure tests. Future work will include thermodynamic analysis of the carbon concentration – activity relationship including the effect of carbide-forming elements, vanadium and niobium in G91 steel. Kinetics of carbon diffusion and the effect on microstructure and mechanical performance under various service conditions will also be investigated. The ultimate goal is to understand the mechanisms and the kinetics of carbon transfer in the sodium-steel system and to provide a basis for predicting the effect of long-term decarburization-carburization process on the integrity of reactor components.

22 GENERAL STUDIES OF NUCLEAR REACTORS↗

DOE OSTI2021

Seamless Hybrid-integrated Interconnect NEtwork (SHINE)

Large-scale date centers are becoming increasingly limited by the capacity of interconnects due to the rapid increasing power consumption and bandwidth demands driven by the rigorous down scaling of CMOS critical dimensions in according with the Moore’s Law. As a result of the continuing bandwidth scaling, optical interconnects based on parallel optics, where data are simultaneously transmitted along more than one lane, have becoming a preferred interconnected solution over copper cables. To building an efficient optical interconnect system, optical coupling between different elements, such as optical fibers, photonics chips, is a critical step, which is challenging due to the mode mismatch of varies optical ports. In this project, we proposed and demonstrated an optical interfacing scheme, which provided a light coupling approach with low energy loss, broadband operation, high alignment tolerance and compatible with scalable fabrication and testing. Here, the mode transformation is achieved by a total internal reflection from a chip integrated microscale freefrom surface. Due to the enormous light wavefront manipulating ability associated with the gigantic design space, the freeform couplers platform is universally applicable to a wide range of optical coupling scenarios, such as the interfacing between a waveguide to a fiber, another waveguide, surface normal device, or free space.

42 ENGINEERING↗

DOE OSTI2016

Young galaxy candidates in the Hubble Frontier Fields. III. MACS J0717.5+3745

In this paper we present the results of our search for and study of z≳6 galaxy candidates behind the third Frontier Fields (FFs) cluster, MACS J0717.5+3745, and its parallel field, combining data from Hubble and Spitzer. We select 39 candidates using the Lyman break technique, for which the clear non-detection in optical make the extreme mid-z interlopers hypothesis unlikely. We also take benefit from z≳6 samples selected using the previous FF data sets of Abell 2744 and MACS 0416 to improve the constraints on the properties of very high redshift objects. We compute the redshift and the physical properties such emission lines properties, star formation rate, reddening, and stellar mass for all FF objects from their spectral energy distribution using templates including nebular emission lines. We study the relationship between several physical properties and confirm the trend already observed in previous surveys for evolution of star formation rate with galaxy mass and between the size and the UV luminosity of our candidates. The analysis of the evolution of the UV luminosity function with redshift seems more compatible with an evolution of density. Moreover, no robust z⩾8.5 object is selected behind the cluster field and few z∼9 candidates have been selected in the two previous data sets from this legacy survey, suggesting a strong evolution in the number density of galaxies between z∼8 and 9. Thanks to the use of the lensing cluster, we study the evolution of the star formation rate density produced by galaxies with L > 0.03 L{sup ⋆}, and confirm the strong decrease observed between z∼8 and 9.

79 ASTRONOMY AND ASTROPHYSICS↗

DOE OSTI2023

BOXKIT

SF-23-067 BoxKit is a library that provides building blocks to parallelize and scale data science, high performance computing, and machine learning applications for block-structured datasets. Spatial data from simulations and experiments can be accessed and managed using tools available in this library when working with more data analysis oriented packages like SciKit (https://github.com/scikit-learn/scikit-learn) and FlowNet (https://github.com/NVIDIA/flownet2-pytorch)

DHRUV, AKASH↗

DOE OSTI2016

SIERRA Toolkit v. 2.0

Coffey, Todd↗

DOE OSTI2022

Race conditions and data partitioning: risks posed by common errors to reproducible parallel simulations

When parallel algorithms for simulation were introduced in the 1970s, their development and use interested only experts in parallel computation. This circumstance changed as multi-core processors became commonplace, putting a parallel computer into the hands of every modeler. A natural outcome is growing interest in parallel simulation among persons not intimately familiar with parallel computing. At the same time, parallel simulation tools continue to be developed with the implicit assumption that the modeler is knowledgeable about parallel programming. The unintended consequence is a rapidly growing number of users of parallel simulation tools that are unlikely to recognize when the interaction of race conditions, partitioning strategies, and simultaneous action in their simulation models make results non-reproducible, thereby calling into question the validity of conclusions drawn from the simulation data. Here, we illustrate the potential dangers of exposing parallel algorithms to users who are not experts in parallel computation with example models constructed using existing parallel simulation tools. By doing so, we hope to refocus tool developers on usability, even if this new focus incurs loss of some performance.

97 MATHEMATICS AND COMPUTING↗