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DOE OSTI2024

Control And Optimization Modular Modeling Application For Nuclear Deployment

The purpose of the COMMAND code is to provide a flexible, scalable tool for use in developing, integrating, and testing the technologies necessary for achieving autonomous operations of advanced nuclear reactors. The code enables users to efficiently implement custom simulations and experiments by combining key methods from different software modules. These modules are focused on: modeling and simulation tools, such as nuclear simulation tools used for high-fidelity modeling (e.g., Reactor Excursion and Leak Analysis Program [RELAP5-3D] and Monte Carlo N-Particle [MCNP]); machine learning and optimization tools (e.g., anomaly detection and data-driven modeling techniques); advanced control in its digital, high-performance, and supervisory control forms (e.g., proportional integral derivative (PID) control and model predictive control (MPC); and integration with hardware through industrial communication protocols. To ensure flexibility and scalability, COMMAND was designed to be both modular—the software “pieces” all inherit from generic building blocks and can be combined and connected to create complicated simulations—and high performing—designed for parallel processing, enabling simulations and experiments to take advantage of multi-core computers, servers, and nodes. The code is written in the Python programming language due to the language's popularity, active community, and open-source and cross-platform nature. Maintaining consistency with other simulation tools used within the nuclear energy community, users implement simulations and experiments through text input files, which define components, parameters, connections, etc., through lines of text. Given that COMMAND is written in Python, these input files are native Python scripts, and so use the standard Python structure and formatting. This also enables users to take advantage of Python's extensive package library to develop custom capabilities for their specific use cases.

Faber, Jacob [Idaho National Laboratory (INL), Ida↗

NASA NTRS2000

Climatology of the Finite-Volume CCM and Sensitivity Studies

A new model has been developed in the Data Assimilation Office at NASA Goddard Space Flight Center. It is intended for data assimilation and general circulation modeling, including representations of radiatively active trace gases such as stratospheric ozone. The model is based on the flux-form semi-Lagrangian' dynamical core, developed by Lin and Rood. In collaboration with the National Center for Atmospheric Research, the physical parametrization package from the Community Climate model, Version 3, has been included. This paper will discuss the climatology of a multi-year integration of the model, with observed boundary conditions (sea-surface temperature, sea ice, and incoming solar radiation). The standard model version has a resolution of 2.5 degrees longitude, 2 degrees latitude and has 55 levels between the surface and 80km. The mean climate and interannual variability of this model will be discussed, with emphasis on the middle atmosphere. The sensitivity to horizontal resolution will be examined, as will the impact of increasing and decreasing the vertical resolution. Changes which differ significantly from the interannual variations of the control run will be highlighted. Impacts of using long-term mean boundary conditions or values which vary from year to year will be discussed. Changes in the tropospheric circulation induced by lowering the upper boundary of the model will be discussed. The emphasis of the paper is on the climatology of the middle atmosphere and its impacts on the troposphere, with particular attention given to the climatologically important region near the tropopause.

Pawson, Steven↗

NASA NTRS2018

Challenges Beyond the Standard Model: An Examination and Evaluation of Alternatives with Respect to Unsolved Problems in Energetics and Signaling

The standard model of particle physics is regarded as one of the greatest achievements of modern physics. It has successfully predicted the existence of numerous hadrons; e.g. the Higgs Boson, the W and Z Bosons, B mesons, etc. Moreover it accurately models many phenomena such as Beta and Radioactive decay, pair production, hadron mass splitting, and others. In spite of this, the standard model has many shortfalls. For example it fails to account for or explain the presence of dark matter and dark energy. Many alternative models of the substructure of matter etc. have been proposed. Some of these are examined. In addition the strongly related standard model of cosmology, that is the big bang theory, accounts for all observed celestial phenomena. What it cannot do is satisfactorily justify all astrophysical events. As noted, dark matter and dark energy are not well understood yet they are core elements of the big bang model. Many elements of this standard model of cosmology are challenged regularly, yet somehow the community always fits the problems with the model into another mysterious element. This model and others are examined for consistency and reconciliation. Evidence of particles that move faster than the speed of light has long been sought, but remains elusive. Some of the known space-like observations of physics are examined. Potential consequences of such particles are likewise investigated. Some conclusions are drawn with respect to the framework of tachyons in a rational but non-rigorous sense. Finally, some of my ideas are presented, concerning all of the above material. The framework of theories of everything is examined, considering what such a theory requires for validity. Sociological notes on the structure of research in physics are given.

Coxe, Alexander M.↗

NASA NTRS2018

Vision 2040: A Roadmap for Integrated, Multiscale Modeling and Simulation of Materials and Systems

Over the last few decades, advances in high-performance computing, new materials characterization methods, and, more recently, an emphasis on integrated computational materials engineering (ICME) and additive manufacturing have been a catalyst for multiscale modeling and simulation-based design of materials and structures in the aerospace industry. While these advances have driven significant progress in the development of aerospace components and systems, that progress has been limited by persistent technology and infrastructure challenges that must be overcome to realize the full potential of integrated materials and systems design and simulation modeling throughout the supply chain. As a result, NASA's Transformational Tools and Technology (TTT) Project sponsored a study (performed by a diverse team led by Pratt & Whitney) to define the potential 25-year future state required for integrated multiscale modeling of materials and systems (e.g., load-bearing structures) to accelerate the pace and reduce the expense of innovation in future aerospace and aeronautical systems. This report describes the findings of this 2040 Vision study (e.g., the 2040 vision state; the required interdependent core technical work areas, Key Element (KE); identified gaps and actions to close those gaps; and major recommendations) which constitutes a community consensus document as it is a result of over 450 professionals input obtain via: 1) four society workshops (AIAA, NAFEMS, and two TMS), 2) community-wide survey, and 3) the establishment of 9 expert panels (one per KE) consisting on average of 10 non-team members from academia, government and industry to review, update content, and prioritize gaps and actions. The study envisions the development of a cyber-physical-social ecosystem comprised of experimentally verified and validated computational models, tools, and techniques, along with the associated digital tapestry, that impacts the entire supply chain to enable cost-effective, rapid, and revolutionary design of fit-for-purpose materials, components, and systems. Although the vision focused on aeronautics and space applications, it is believed that other engineering communities (e.g., automotive, biomedical, etc.) can benefit as well from the proposed framework with only minor modifications. Finally, it is TTT's hope and desire that this vision provides the strategic guidance to both public and private research and development decision makers to make the proposed 2040 vision state a reality and thereby provide a significant advancement in the United States global competitiveness.

multi-scale modeling↗

DOE OSTI2021

Livewire Data Platform: A Catalog of Transportation and Mobility Data

A two-page fact sheet on the capabilities and core services of the Livewire Data Platform, a growing catalog of transportation and mobility-related data that empowers researchers and community planners to easily and securely share and preserve data that support projects and decision making.

47 OTHER INSTRUMENTATION↗

DOE OSTI2021

Livewire Data Platform: A Catalog of Transportation and Mobility Data

Livewire, EEMS, energy-efficient mobility systems,↗

DOE OSTI2021

Bringing OpenCL to Commodity RISC-V CPUs

The importance of open-source hardware has been increasing in recent years with the introduction of the RISC-V Open ISA. This has also accelerated the push for support of the open-source software stack from compiler tools to full-blown operating systems. Parallel computing with today’s Application Programming Interfaces such as OpenCL has proven to be effective at leveraging the parallelism in commodity multi-core processors and programmable parallel accelerators. However, to the best of our knowledge, there is currently no publicly available implementation of OpenCL targeting commodity RISC-V processors that is accessible to the open-source community. Besides opening RISC-V to the existing rich variety of scientific parallel applications, OpenCL also provides access to a unique genre of benchmarks useful in computer architecture research. In this work, we extended an Open-source implementation of OpenCL to target RISC-V CPUs. Our work not only cover commodity multi-core RISC-V processors, but also plethora of low- profile embedded RISC-V CPUs that often do not support atomic instructions or multi-threading.

Tine, Blaise↗

DOE OSTI2021

Simulating Magnetized Electron Cooling for EIC with JSPEC

We present a possible electron cooling configuration for the proposed Electron Ion Collider (EIC) facility, developed using a Nelder-Mead Simplex optimization procedure built into JSPEC, an electron cooling code developed at Jefferson Lab. We show the time evolution of the emittance of the ion beam in the presence of this cooler evaluated assuming the ion distribution remains Gaussian. We also show that bi-gaussian distributions emerge in simulations of ion macro-particles. We show how intra-beam scattering can be treated with a core-tail model in simulations of ion macro-particles. The Sirepo/JSPEC* and Sirepo/Jupyter** apps will be presented, with instructions enabling the community to reproduce our simulations.

Coleman, S. J.↗

DOE OSTI2020

Assessment of the Griffin Reactor Multiphysics Application Using the Empire Micro Reactor Design Concept

In late 2019, INL and ANL agreed to jointly develop the reactor physics code named Griffin based on the integration of the two code suites, MAMMOTH/Rattlesnake (INL) and MC2 - 3/PROTEUS (ANL). Griffin is being developed based on the MOOSE framework and MOOSE quality assurance procedures. This decision was made to be able to allow DOE-NE to efficiently invest funding to this area and to provide effective and timely support for existing and potential users; the latter includes industry and government organizations who are developing various types of advanced reactors in the near and long term. Since MAMMOTH/Rattlesnake has been developed based on the MOOSE framework, the INL/ANL Griffin development team agreed to build Griffin beginning with a merger of MAMMOTH and Rattlesnake into a single code and moving forward by implementing capabilities from the PROTEUS suite into Griffin. Moving forward, both ANL and INL efforts are equally invested in the Griffin project, with management support, to provide an advanced reactor multiphysics tool to assist in reactor design, optimization, and safety analysis. Much work remains in moving Griffin forward to migrate PROTEUS capabilities and to optimize performance to meet user needs. The main objective of this work is to assess the current status of Griffin capabilities in terms of performance and accuracy, to determine priorities for PROTEUS migration, and to identify capabilities and features to improve for supporting the code integration effort. For this assessment, the Empire micro reactor problem that was developed in the ARPA-E MEITNER program was selected as an advance reactor concept of interest to the technical community. The Empire reactor problem was expanded from its original incomplete specification to be a small heat-pipe-cooled micro reactor core with ~113 cm radius and 70 cm in height, composed of 18 fuel assemblies, 12 control drums, and beryllium radial and axial reflectors. In the current model, using 5 cm axial reflectors specified in the original Empire assembly model, more than 10% of neutrons leak axially and through the empty center safety hole, as well as through heat pipe channels in fuel assembly elements that extend through the top reflector region. Several calculation models of the core were defined for systematic assessment, including 2-D and 3-D fuel assemblies and whole cores with cylindrical boundaries. Cross sections were generated using Serpent 2, and meshes were produced using the Argonne mesh tool or the INL neutronics meshing tools combined with CUBIT. Cross sections and meshes were converted to the ISOXML and Exodus formats, respectively, so that Griffin and PROTEUS could use consistent data for solving the reactor problems. With the prepared cross sections and meshes, PROTEUS was run first to ensure that all input data were correctly generated and input options in terms of angle, mesh, and energy group were accurately determined. Comparisons against Serpent 2 solutions were made in terms of eigenvalue and pin power. The same calculations and comparisons were then conducted using Griffin. For the fuel assembly and whole core problems, the PROTEUS eigenvalues agreed well with reference Serpent 2 solutions within 100 and 30 pcm, respectively, and pin power differences relative to Serpent 2 were overall less than 2.2% and RMS 0.8% for the whole core models. This indicated that all input data were properly prepared. Using the same data, Griffin was run selecting the SAAF-CFEM SN solver with Legendre-Gaussian quadrature and NDA and DSA for acceleration. It was found that the SAAF-CFEM solver of Griffin required finer meshes to achieve eigenvalue and pin power solutions in good agreement with Serpent 2, consequently requiring more memory requirement and longer computation time. On the other hand, the SPH-Diffusion 2-D core calculations performed using Griffin were able to recover the exact eigenvalue from the reference Serpent 2 solutions, resulting in a pin-power distribution with an RMS of 0.6% and maximum absolute difference of less than 1.4%. The runtimes for SPH-Diffusion for the 2-D core were less than 3 minutes on 40 cores. During this evolution of this evaluation, many updates were made in Griffin by the Griffin development team of INL (focusing on software updates) and ANL (reviewing and supporting software updates) to complete this assessment. Observations from the code assessment are presented in the conclusion section of this report, followed by a discussion of recommendations for future work.

21 SPECIFIC NUCLEAR REACTORS AND ASSOCIATED PLANTS↗

NASA NTRS2001

Evaluation of Tropical Transport in a Global Chemistry and Transport Model

Observations of constituents from satellite, aircraft and sondes can be utilized to develop diagnostics of various aspects of tropical transport. These include tropical mid-latitude isolation, the seasonal transport from the upper tropical troposphere to the mid-latitude lowermost stratosphere, the seasonal cycle of the tropical total ozone and its variability. These diagnostics will be applied to constituent fields from an off-line chemistry and transport model (CTM) driven by winds from two sources. These are the Finite Volume Community Climate Model (FV-CCM), a general circulation model that uses the NCAR CCM physics and the Lin and Rood dynamical core, and an assimilation system developed by the Data Assimilation Office at the Goddard Space Flight Center that uses the FV-CCM at its core. Signatures of the quasi-biennial oscillation present in the observations will be emphasized to understand differences between the two model transports and the transport inferred from the observations.

Douglass, Anne R.↗

DOE OSTI2020

Nevada Higher Education Benefits from US Department of Energy (DOE) Environmental Management (EM) Nevada Program's Transfer of Geologic Samples - 20442

The Nevada National Security Site (NNSS), formerly the Nevada Test Site, was the location of 100 historic atmospheric and 828 historic underground nuclear tests from 1951 to 1992. Related to this historic nuclear testing, geologic and hydrologic studies of the site were conducted utilizing the skills and the expertise of the U.S. Geological Survey (USGS) and national laboratories (Los Alamos National Laboratory, Lawrence Livermore National Laboratory), who were principal in leading the development of weapons and were responsible for specific underground testing programs. The subsurface samples and technical/scientific data associated with NNSS geologic studies (past and present) are preserved and stored at the USGS Mercury Core Library and Data Center located at the NNSS. Currently, the facility stores over 2,000,000 linear feet of cores and cuttings from more than 2,600 drill holes that can be accessed for study. Most of the samples and historic geologic work was focused directly on subsurface geologic settings that relate directly to historic underground nuclear testing. Since 1992, the United States has observed a unilateral moratorium on full-scale nuclear testing, and the U.S. Department of Energy (DOE) Environmental Management (EM) Nevada Program is now responsible for hydrogeologic characterization of the potential impacts to the natural groundwater systems that may have resulted from historic underground nuclear tests. As part of this effort, the EM Nevada Program Underground Test Area (UGTA) Activity has drilled and completed over 58 deep (2,000 - 7,000 ft.) characterization wells, totaling in excess of 170,000 linear feet of cuttings and core samples. Cutting samples were collected as triplicate samples for each respective depth interval, to account for potential later nondestructive/destructive analysis and to preserve samples for regulatory purposes. Recently, it was recognized by the EM Nevada Program that opportunities may exist to reduce the cost and floor space required for the storage of geologic samples at the Mercury Core Library without impacting the integrity and representative nature of the samples necessary for project execution. An initiative was sponsored by EM Nevada Program to evaluate several options: 1) disposal of a portion of cuttings and cores in a land fill setting; 2) reduction in sample volume through skeletonizing core and cuttings from wells to a representative but much smaller number of samples; and 3) solicit potential interest in the academic community where other geoscientists could freely access the samples for studies. The Nevada state university system through the Nevada Bureau of Mines and Geology responded positively to the opportunity to receive these NNSS samples from the EM Nevada Program. In June 2019, approximately 17,000 geologic samples, representing greater than 170,000 linear feet of drilling and weighing over 20,000 pounds, were shipped from the NNSS to the Great Basin Science Sample and Records Library located in Reno, Nevada. The benefits resulting from this transfer were realized by the EM Nevada Program in terms of cost and space savings for geologic sample storage at the NNSS. The transfer did not impact the EM Nevada Program mission as access to representative geologic samples for regulatory and scientific purposes was preserved. Moreover, the Nevada Bureau of Mines and Geology acquired a significant resource of subsurface geologic samples and supporting technical data to support academic and scientific studies in a complex volcanic setting in southwest Nevada. (authors)

12 MANAGEMENT OF RADIOACTIVE AND NON-RADIOACTIVE W↗

DOE OSTI2025

Old Woman Creek Wetland Sediment and Electrochemical Sensor Microbial Community, 2023

We are developing a technique to monitor microbiological activities referred to as zero resistance ammetry, which entails the deployment of graphite electrodes in sediments. Measurement of current between electrodes of contrasting redox regimes and/or predominant terminal electron accepting processes can be used as an indicator of the extents of microbiological activity. We deployed an electrode array at depths of 2 mm, 4 mm, 76 mm, 78 mm, 152 mm, 154 mm, 227 mm, and 229 mm below the wetland sediment water interface in the Old Woman Creek National Estuarine Research Center, Huron, OH, USA (Lat. = 41.380833, Long. = -82.508889). A core was collected from adjacent sediment and subsamples were collected from depth intervals of 0 – 25 mm, 25 – 127 mm, 127 – 128 mm, and below 178 mm. To determine if the microbial communities attached to the electrodes were reflective of the adjacent sediment-associated microbial community, we conducted a 16S rRNA gene-based (V4 region) survey of these respective materials. This data package contains the results of these surveys, including metadata on the depths from which samples were collected (samples.csv), DNA extraction and sequencing information (OWC_DEPTH_AMPLICON_SEQUENCING_METADATA), sequence processing information (OWC_DEPTH_BIOINFORMATIC_METADATA.csv), an operational taxonomic unit (OTU) table (OWC_DEPTH_97OTUS_TABLE.csv), and nucleotide sequences of OTUs (OWC_DEPTH_97OTUS_SEQS.fasta). All files can be opened using a text-editing application. The fasta file is compatible with bioinformatics applications.

54 ENVIRONMENTAL SCIENCES↗

DOE OSTI2023

Distinct Depth-Discrete Profiles of Microbial Communities and Geochemical Insights in the Subsurface Critical Zone

Microbial assembly and metabolic potential in the subsurface critical zone (SCZ) are substantially impacted by subsurface geochemistry and hydrogeology, selecting for microbes distinct from those in surficial soils. In this study, we integrated metagenomics and geochemistry to elucidate how microbial composition and metabolic potential are shaped and impacted by vertical variations in geochemistry and hydrogeology in terrestrial subsurface sediment. A sediment core from an uncontaminated, pristine well at Oak Ridge Field Research Center in Oak Ridge, Tennessee, including the shallow subsurface, vadose zone, capillary fringe, and saturated zone, was used in this study. Our results showed that subsurface microbes were highly localized and that communities were rarely interconnected. Microbial community composition as well as metabolic potential in carbon and nitrogen cycling varied even over short vertical distances. Further analyses indicated a strong depth-related covariation of community composition with a subset of 12 environmental variables. An analysis of dissolved organic carbon (DOC) quality via ultrahigh resolution mass spectrometry suggested that the SCZ was generally a low-carbon environment, with the relative portion of labile DOC decreasing and that of recalcitrant DOC increasing along the depth, selecting microbes from copiotrophs to oligotrophs and also impacting the microbial metabolic potential in the carbon cycle. Our study demonstrates that sediment geochemistry and hydrogeology are vital in the selection of distinct microbial populations and metabolism in the SCZ.

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2021

A clustering-based approach to ocean model–data comparison around Antarctica

The Antarctic Continental Shelf seas (ACSS) are a critical, rapidly changing element of the Earth system. Analyses of global-scale general circulation model (GCM) simulations, including those available through the Coupled Model Intercomparison Project, Phase 6 (CMIP6), can help reveal the origins of observed changes and predict the future evolution of the ACSS. However, an evaluation of ACSS hydrography in GCMs is vital: previous CMIP ensembles exhibit substantial mean-state biases (reflecting, for example, misplaced water masses) with a wide inter-model spread. Because the ACSS are also a sparely sampled region, grid-point-based model assessments are of limited value. Our goal is to demonstrate the utility of clustering tools for identifying hydrographic regimes that are common to different source fields (model or data), while allowing for biases in other metrics (e.g., water mass core properties) and shifts in region boundaries. We apply K-means clustering to hydrographic metrics based on the stratification from one GCM (Community Earth System Model version 2; CESM2) and one observation-based product (World Ocean Atlas 2018; WOA), focusing on the Amundsen, Bellingshausen and Ross seas. When applied to WOA temperature and salinity profiles, clustering identifies “primary” and “mixed” regimes that have physically interpretable bases. For example, meltwater-freshened coastal currents in the Amundsen Sea and a region of high-salinity shelf water formation in the southwestern Ross Sea emerge naturally from the algorithm. Both regions also exhibit clearly differentiated inner- and outer-shelf regimes. The same analysis applied to CESM2 demonstrates that, although mean-state model biases in water mass T–S characteristics can be substantial, using a clustering approach highlights that the relative differences between regimes and the locations where each regime dominates are well represented in the model. CESM2 is generally fresher and warmer than WOA and has a limited fresh-water-enriched coastal regimes. Given the sparsity of observations of the ACSS, this technique is a promising tool for the evaluation of a larger model ensemble (e.g., CMIP6) on a circum-Antarctic basis.

54 ENVIRONMENTAL SCIENCES↗

NASA NTRS2001

Comparison of the Variability of Constituents from a 3D Simulation with Observations in the Tropics

Fields from chemical transport models (CTMs) driven by assimilated winds have been shown to represent many aspects of observations at middle and high latitudes. Comparisons of modeled fields with observations have been much poorer in the tropics. Noise in the tropical winds produces variability in constituents in the tropics that greatly exceeds what is observed, Constituent gradients between the tropics, subtropics and middle latitudes are weaker than observed in the lower stratosphere. Tropical transport is shown to be much more realistic using a CTM driven by winds from the assimilation system that has recently been developed by the Data Assimilation Office at Goddard Space Flight Center. The Finite Volume Community Climate Model (FV-CCM), a general circulation model model that uses the NCAR CCM physics and the Lin and Rood dynamical core, is at the core of the new assimilation system. Realistic transport in the tropics, particularly troposphere to stratosphere exchange, is an obvious requirement for realistic representation of the stratosphere to troposphere transport of ozone and other stratospheric constituents to the middle latitude upper troposphere.

Douglass, A. R.↗

NASA NTRS2018

2040 Vision: A Roadmap for Integrated, Multiscale Materials and System Modeling and Simulation

Over the last few decades, advances in high-performance computing, new materials characterization methods, and, more recently, an emphasis on integrated computational materials engineering (ICME) and additive manufacturing have been a catalyst for multiscale modeling and simulation-based design of materials and structures in the aerospace industry. While these advances have driven significant progress in the development of aerospace components and systems, that progress has been limited by persistent technology and infrastructure challenges that must be overcome to realize the full potential of integrated materials and systems design and simulation modeling throughout the supply chain. As a result, NASA's Transformational Tools and Technology (TTT) Project sponsored a study (performed by a team led by Pratt & Whitney) to define the potential 25-year future state required for integrated multiscale modeling of materials and systems (e.g., load-bearing structures) to accelerate the pace and reduce the expense of innovation in future aerospace and aeronautical systems. This talk will describe the findings of this 2040 Vision study (e.g., the 2040 vision state; the required interdependent core technical work areas, Key Element (KE); associated critical gaps and actions to close those gaps; and major recommendations). This roadmap is a community consensus document and is a result of over 450 professionals input obtain via: i) four society workshops (AIAA, NAFEMS, and two TMS), ii) community-wide survey, and iii) the establishment of 9 expert panels (one per key element) consisting on average 10 non-team members from academia, government and industry to review, update content, and prioritize gaps and actions. It is NASA's hope and desire that this roadmap provides the strategic guidance to both public and private research and development decision makers to make the proposed 2040 vision state a reality and thereby provide a significant advancement in the United States global competitiveness.

Multiscale Modeling↗

NASA NTRS2021

The impacts of warming on rapidly retreating high-altitude, low-latitude glaciers and ice core-derived climate records

Alpine glaciers in the low- and mid-latitudes respond more quickly than large polar ice sheets to changes in temperature, precipitation, cloudiness, humidity, and radiation. Many high-altitude glaciers are monitored by ground observations, aerial photography, and satellite-borne sensors. Regardless of latitude and elevation, nearly all nonpolar glaciers and ice caps are undergoing mass loss, which compromises the records of past climate preserved within them. Almost without exception, the retreat of these ice fields is persistent, and a very important driver is the recent warming of the tropical troposphere and oceans. Here we present data on the decrease in the surface area of four glaciers from low- to mid-latitude mountainous regions: the Andes of Peru and northern Bolivia, equatorial east Africa, equatorial Papua, Indonesia, and the western Tibetan Plateau. Climate records based on oxygen isotopic ratios (δ18O) measured in ice cores drilled from several glaciers in these regions reveal that the records from elevations below ~6000 m above sea level have been substantially modified by seasonal melting and the movement of meltwater through porous upper firn layers. Fortunately, δ18O records recovered from higher altitude sites still contain well-preserved seasonal variations to the surface; however, the projected increase in the rate of atmospheric warming implies that climate records from higher elevation glaciers will eventually also be degraded. A long-term ice core collection program on the Quelccaya ice cap in Peru, Earth's largest tropical ice cap, illustrates that the deterioration of its climate record is concomitant with the increase in mid-troposphere temperatures. The melting ice and resulting growth of proglacial lakes presents an imminent hazard to nearby communities. The accelerating melting of glaciers, if sustained, ensures the eventual loss of unique and irreplaceable climate histories, as well as profound economic, agricultural, and cultural impacts on local communities.

Low-latitude glaciers↗

DOE OSTI2024

PySAGES: flexible, advanced sampling methods accelerated with GPUs

Abstract Molecular simulations are an important tool for research in physics, chemistry, and biology. The capabilities of simulations can be greatly expanded by providing access to advanced sampling methods and techniques that permit calculation of the relevant underlying free energy landscapes. In this sense, software that can be seamlessly adapted to a broad range of complex systems is essential. Building on past efforts to provide open-source community-supported software for advanced sampling, we introduce PySAGES, a Python implementation of the Software Suite for Advanced General Ensemble Simulations (SSAGES) that provides full GPU support for massively parallel applications of enhanced sampling methods such as adaptive biasing forces, harmonic bias, or forward flux sampling in the context of molecular dynamics simulations. By providing an intuitive interface that facilitates the management of a system’s configuration, the inclusion of new collective variables, and the implementation of sophisticated free energy-based sampling methods, the PySAGES library serves as a general platform for the development and implementation of emerging simulation techniques. The capabilities, core features, and computational performance of this tool are demonstrated with clear and concise examples pertaining to different classes of molecular systems. We anticipate that PySAGES will provide the scientific community with a robust and easily accessible platform to accelerate simulations, improve sampling, and enable facile estimation of free energies for a wide range of materials and processes.

Chemistry↗