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At least 1,531 records · Page 85

Profiling Production OpenSHMEM Applications, In: OpenSHMEM 2016: OpenSHMEM and Related Technologies. Enhancing OpenSHMEM for Hybrid Environments

Developing high performance OpenSHMEM applications routinely involves gaining a deeper understanding of software execution, yet there are numerous hurdles to gathering performance metrics in a production environment. Most OpenSHMEM performance profilers rely on the PSHMEM interface but PSHMEM is an optional and often unavailable feature. We present a tool that generates direct measurement performance profiles of OpenSHMEM applications even when PSHMEM is unavailable. The tool operates on dynamically linked and statically linked application binaries, does not require debugging symbols, and functions regardless of compiler optimization level. Integrated in the TAU Performance System, the tool uses automatically-generated wrapper libraries that intercept OpenSHMEM API calls to gather performance metrics with minimal overhead. Dynamically linked applications may use the tool without modifying the application binary in any way.

Computer Science↗

An Event Detection Framework for Virtual Observation System: Anomaly Identification for an ACME Land Simulation

Based on previous work on in-situ data transfer infrastructure and compiler-based software analysis, we have designed a virtual observation system for real time computer simulations. This paper presents an event detection framework for a virtual observation system. By using signal processing and detection approaches to the memory-based data streams, this framework can be reconfigured to capture high-frequency events and low-frequency events. These approaches used in the framework can dramatically reduce the data transfer needed for in-situ data analysis (between distributed computing nodes or between the CPU/GPU nodes). In the paper, we also use a terrestrial ecosystem system simulation within the Earth System Model to demonstrate the practical values of this effort.

Yao, Cindy↗

OpenMP 4.5 Validation and Verification Suite for Device Offload

OpenMP has been widely adopted for shared memory systems for over a decade. With the heterogeneity trend in architectures rapidly growing, the programming model needed to evolve such that applications could not only be ported to traditional CPUs but also to accelerators often acting as discrete or integrated devices to CPUs. To that end, OpenMP started to provide support for heterogeneous systems since 2013 when the version 4.0 of the specification was ratified. OpenMP 4.5 is being enhanced to cover major requirements of Exascale Computing Project (ECP) applications. As a result it is time-critical to ensure that the implementations of the 4.5 features are correct and conforming to the specification. This paper focuses on building a Validation and Verification testsuite that will test and present results for several offloading features implemented in compilers such as Clang, IBM XL C/C++, CCE, and GCC. We have results for our testsuite on TITAN, Summitdev and Summit at the Oak Ridge National Lab. We will highlight some of the ambiguities we encountered in the process of validating and verifying feature implementations. We also make the testsuite available for anyone to use and will walk the readers through the infrastructure and the workflow of the testsuite. A website has been built to capture our efforts narrated in this paper https://crpl.cis.udel.edu/ompvvsollve.

99 GENERAL AND MISCELLANEOUS↗

A Similarity-Based Analysis Tool for Porting OpenMP Applications. In: Facing the Multicore-Challenge III. Lecture Notes in Computer Science, vol 7686.

Exascale computers are expected to exhibit an unprecedented level of complexity, thereby posing significant challenges for porting applications to these new systems. One of the ways to support this transition is to create tools that allow their users to benefit from prior successful porting experiences. The key to such an approach is the manner in which we define source code similarity, and whether similar codes can be ported in the same way to a given system. In this paper, we propose a novel approach based on the notion of similarity that uses static and dynamic code features to check if two serial subroutines can be ported with the same OpenMP strategy. Our approach creates an annotated family distance tree based on the syntactic structure of subroutines, where subroutines that belong to the same syntactic family and share the similar code features have a greater potential to be optimized in the same way. We describe the design and implementation of a tool, based upon a compiler and performance tool, that is used to gather the data to build this porting planning tree. We then validate our approach by analyzing the similarity in subroutines of the serial version of the NAS benchmarks and comparing how they were ported in the OpenMP version of the suite.

Ding, Wei↗

Software design space exploration for exascale combustion co-design

The design of hardware for next-generation exascale computing systems will require a deep understanding of how software optimizations impact hardware design trade-offs. In order to characterize how co-tuning hardware and software parameters affects the performance of combustion simulation codes, we created ExaSAT, a compiler-driven static analysis and performance modeling framework. Our framework can evaluate hundreds of hardware/software configurations in seconds, providing an essential speed advantage over simulators and dynamic analysis techniques during the co-design process. Our analytic performance model shows that advanced code transformations, such as cache blocking and loop fusion, can have a significant impact on choices for cache and memory architecture. Our modeling helped us identify tuned configurations that achieve a 90% reduction in memory traffic, which could significantly improve performance and reduce energy consumption. These techniques will also be useful for the development of advanced programming models and runtimes, which must reason about these optimizations to deliver better performance and energy efficiency.

97 MATHEMATICS AND COMPUTING↗

Categorisation and detection of dark matter candidates from string/M-theory hidden sectors

We study well-motivated dark matter candidates arising from weakly-coupled hidden sectors in compactified string/ M -theory. Imposing generic top-down constraints greatly restricts allowed candidates. By considering the possible mechanisms for achieving the correct dark matter relic density, we compile categories of viable dark matter candidates and annihilation mediators. We consider the case where supersymmetry breaking occurs via moduli stabilization and is gravitationally mediated to the visible and other hidden sectors, without assuming sequestering of the sector in which supersymmetry is broken. We find that in this case, weakly-coupled hidden sectors only allow for fermionic dark matter. Additionally, most of the mechanisms for obtaining the full relic density only allow for a gauge boson mediator, such as a dark Z' . Given these considerations, we study the potential for discovering or constraining the allowed parameter space given current and future direct detection experiments, and direct production at the LHC. We also present a model of a hidden sector which would contain a satisfactory dark matter candidate.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Quantifying the Potential of Argon Detection Capabilities for Nuclear Explosion Monitoring

Abstract Current noble gas detection systems for nuclear explosion monitoring are based on the detection of four radioxenon isotopes—Xe-131m, -133, -133m and -135. The data provided by radioxenon detection could be enhanced by other radionuclide signatures such as Ar-37. Activation of Ca-40 in rock by neutrons produces Ar-37, and monitoring for this additional nuclide could help distinguish detections of nuclear explosions from background sources, such as medical isotope production. This work studies the capabilities of a hypothetical argon detection network. A 10 kt explosion was modeled using MCNP and SCALE to determine the inventory of Ar-37 created in a representative granite rock layer, assuming either 0.1, 1 or 10% of the total inventory was released. The Ar-37 inventory was combined with atmospheric transport data from HYSPLIT compiled in a previous study, along with the detection limits of standard Ar-37 detection systems, to determine how many hypothetical monitoring stations would detect Ar-37 from an explosion. This method was repeated for 365 HYSPLIT data sets to create a year’s worth of hypothetical explosions, releases, and detections. The study quantified the average number of detections per release, the number of stations detecting Ar-37, and the possibility of detecting Ar-37 in coincidence with xenon.

37Ar↗

Analysis of the Quality of Information Obtained About Uterine Artery Embolization From the Internet

Purpose: The Internet is widely used by patients to source health care-related information. We sought to analyse the quality of information available on the Internet about uterine artery embolization (UAE). Materials and Methods: We searched three major search engines for the phrase 'uterine artery embolization' and compiled the top 50 results from each engine. After excluding repeated sites, scientific articles, and links to documents, the remaining 50 sites were assessed using the LIDA instrument, which scores sites across the domains of accessibility, usability, and reliability. The Fleisch reading ease score (FRES) was calculated for each of the sites. Finally, we checked the country of origin and the presence of certification by the Health On the Net Foundation (HONcode) as well as their effect on LIDA and FRES scores.ResultsThe following mean scores were obtained: accessibility 48/60 (80%), usability 42/54 (77%), reliability 20/51 (39%), total LIDA 110/165 (67%), and FRES 42/100 (42%). Nine sites had HONcode certification, and this was associated with significantly greater (p < 0.05) reliability and total LIDA and FRES scores. When comparing sites between United Kingdom and United States, there was marked variation in the quality of results obtained when searching for information on UAE (p < 0.05). Conclusion: In general, sites were well designed and easy to use. However, many scored poorly on the reliability of their information either because they were produced in a non-evidence-based way or because they lacking currency. It is important that patients are guided to reputable, location-specific sources of information online, especially because prominent search engine rank does not guarantee reliability of information.

62 RADIOLOGY AND NUCLEAR MEDICINE↗

The Management of Cephalic Arch Stenosis in Arteriovenous Fistulas for Hemodialysis: A Systematic Review

AimTo conduct a systematic review of management of current cephalic arch stenosis (CAS) and associated outcomes in the context of dysfunctional hemodialysis access.Materials and MethodsPubMed, Web of Science, and Cochrane Library were searched to retrieve literature on the management of CAS. Studies had to focus on management of access stenosis solely in the cephalic arch. Case reports and literature reviews were excluded. Studies were categorized by intervention, and primary and secondary patency data were compiled. Studies were aggregated, and meta-analyses were performed where possible.ResultsNine papers satisfied the aforementioned criteria: five were retrospective studies and four were prospective studies. CAS management strategies have included percutaneous transluminal balloon angioplasty (PTA), peripheral cutting balloons, surgical cephalic vein transpositions, bare stents, and stent grafts. Reporting strategies varied between studies. Meta-analyses showed that results were variable even within studies using the same modality, particularly for PTA.ConclusionNo singular, definitive management strategy exists for CAS. Current studies are limited by being primarily single-center retrospective trials featuring heterogenous patient populations, interventions, and endpoints. Priorities for future studies should include larger randomized trials, more uniform management strategies and endpoints, and a longer duration of follow-up.

62 RADIOLOGY AND NUCLEAR MEDICINE↗

Feasibility of Intraoperative Nerve Monitoring in Preventing Thermal Damage to the “Nerve at Risk” During Image-Guided Ablation of Tumors

PurposeTo assess feasibility of intraoperative neurophysiologic monitoring (IONM) during image-guided, percutaneous thermal ablation of tumors.Materials and MethodsFrom February 2009 to October 2013, a retrospective review of all image-guided percutaneous thermal ablation interventions using IONM was performed and data was compiled using electronic medical records and imaging studies.ResultsTwelve patients were treated in 13 ablation interventions. In 4 patients, real-time feedback from the monitoring neurologist was used to adjust applicator placement and ablation settings. IONM was technically feasible in all procedures and there were no complications related to monitoring or ablation. All nerves at risk remained intact and of the 11 patients who could be followed, none developed new nerve deficit up to a minimum of 2 months after ablation.ConclusionIONM is safe and feasible for use during image-guided thermal ablation of tumors in the vicinity of nerves. Outcomes in this study demonstrate its potential utility in image-guided ablation interventions.

62 RADIOLOGY AND NUCLEAR MEDICINE↗

An annotated database of Arabidopsis mutants of acyl lipid metabolism

Mutants have played a fundamental role in gene discovery and in understanding the function of genes involved in plant acyl lipid metabolism. The first mutant in Arabidopsis lipid metabolism ( fad4 ) was described in 1985. Since that time, characterization of mutants in more than 280 genes associated with acyl lipid metabolism has been reported. This review provides a brief background and history on identification of mutants in acyl lipid metabolism, an analysis of the distribution of mutants in different areas of acyl lipid metabolism and presents an annotated database (ARALIPmutantDB) of these mutants. The database provides information on the phenotypes of mutants, pathways and enzymes/proteins associated with the mutants, and allows rapid access via hyperlinks to summaries of information about each mutant and to literature that provides information on the lipid composition of the mutants. Mutants for at least 30 % of the genes in the database have multiple names, which have been compiled here to reduce ambiguities in searches for information. Furthermore, the database should also provide a tool for exploring the relationships between mutants in acyl lipid-related genes and their lipid phenotypes and point to opportunities for further research.

59 BASIC BIOLOGICAL SCIENCES↗

Yb:Lu 2 O 3 hydrothermally grown single-crystal high-resolution absorption spectra obtained between 8 and 300 K

Here we present new high-resolution absorption data for the important sesquioxide laser material Yb:Lu 2 O 3 for the spectral range of 880–1020 nm, at various temperatures between 8 and 300 K, and for the zero-phonon region from 960 to 990 nm, at temperatures from 8 to 300 K. We have experimentally observed the C 3i (0,1)–(1,3) transition for the first time, located at 880.7 nm at 8 K. Based on high confidence fitting functions to the experimental data, we provide the first complete compilation of all observed electronic and electronic–vibrational transitions. Detailed fitting and plots of the C 2 and C 3i zero-line data show an evolution of the linewidth from being predominantly electronic below about 100 K to being dominated by thermal processes above 100 K. We have also found evidence for a “soft” phase transition between 80 and 100 K that changes the local coordination environment.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Oxygen isotope evolution of the Lake Owyhee volcanic field, Oregon, and implications for the low-δ 18 O magmatism of the Snake River Plain–Yellowstone hotspot and other low-δ 18 O large igneous provinces

The Snake River Plain–Yellowstone (SRP-Y) hotspot track represents the largest known low-δ 18 O igneous province; however, debate persists regarding the timing and distribution of meteoric hydrothermal alteration and subsequent melting/assimilation relative to hotspot magmatism. To further constrain alteration relations for SRP-Y low-δ 18 O magmatism, we present in situ δ 18 O and U–Pb analyses of zircon, and laser fluorination δ 18 O analyses of phenocrysts, from the Lake Owyhee volcanic field (LOVF) of east-central Oregon. U–Pb data place LOVF magmatism between 16.3 and 15.4 Ma, and contain no evidence for xenocrystic zircon. LOVF δ 18 O(Zrc) values demonstrate (1) both low-δ 18 O and high-δ 18 O caldera-forming and pre-/post-caldera magmas, (2) relative increases in δ 18 O between low-δ 18 O caldera-forming and post-caldera units, and (3) low-δ 18 O magmatism associated with extension of the Oregon-Idaho Graben. The new data, along with new compilations of (1) in situ zircon δ 18 O data for the SRP-Y, and (2) regional δ 18 O(WR) and δ 18 O(magma) patterns, further constrain the thermal and structural associations for hydrothermal alteration in the SRP-Y. Models for low-δ 18 O magmatism must be compatible with (1) δ 18 O(magma) trends within individual SRP-Y eruptive centers, (2) along axis trends in δ 18 O(magma), and (3) the high concentration of low-δ 18 O magmas relative to the surrounding regions. When considered with the structural and thermal evolution of the SRP-Y, these constraints support low-δ 18 O magma genesis originating from syn-hotspot meteoric hydrothermal alteration, driven by hotspot-derived thermal fluxes superimposed on extensional tectonics. Lastly, this model is not restricted to continental hotspot settings and may apply to several other low-δ 18 O igneous provinces with similar thermal and structural associations.

58 GEOSCIENCES↗

Perspectives on Few-Body Cluster Structures in Exotic Nuclei

It is a fascinating phenomenon in nuclear physics that states with a pronounced few-body structure can emerge from the complex dynamics of many nucleons. Such halo or cluster states often appear near the boundaries of nuclear stability. As such, they are an important part of the experimental program beginning at the Facility for Rare Isotope Beams (FRIB). A concerted effort of theory and experiment is necessary both to analyze experiments involving effective few-body states, as well as to constrain and refine theories of the nuclear force in light of new data from these experiments. Here, as a contribution to exactly this effort, this paper compiles a collection of “perspectives” that emerged out of the Topical Program “Few-body cluster structures in exotic nuclei and their role in FRIB experiments” that was held at FRIB in August 2022 and brought together theorists and experimentalists working on this topic.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗

Review: Pre-Darcy flows in low-permeability porous media

The widely used Darcy’s law specifies a linear relation between the Darcy velocity of fluid flow and the pressure gradient that drives the flow. However, studies have shown that Darcy velocity can exhibit a nonlinear dependence on the pressure gradient in low-permeability porous media such as clay and shale when the pressure gradient is adequately low. This phenomenon is referred to as low-velocity non-Darcian flow or pre-Darcy flow. This paper provides a comprehensive review of the theories, experimental data, and modeling methods for pre-Darcy flow in low-permeability porous media. The review begins by outlining the fundamental mechanisms underlying pre-Darcy flow that regulate the unique characteristics such as nonlinear dependence of the Darcy velocity on the pressure gradient and its relevance to fluid–rock interactions. The review then proceeds to present a thorough compilation of experimental investigations performed in various low-permeability geomaterials including tight sandstones, shales, and clays. Next, empirical and theoretical models and simulation methods that have been developed to fit and interpret experimental data are reviewed. Finally, the review underscores the challenges encountered in conducting and interpreting pre-Darcy flow experiments and suggests future research directions. By analyzing previous experimental investigations, this review aims to offer a valuable resource for researchers and practitioners seeking to enhance their understanding of fluid dynamics in low-permeability geomaterials. This provides insights into the application of pre-Darcy flow in numerous natural and engineered processes such as shale oil and gas recovery, contaminant transport in low-permeability aquifers, and geological disposal of nuclear waste.

58 GEOSCIENCES↗

Decadal carbon decomposition dynamics in three peatlands in Northern Minnesota

The uppermost portion of the peat profile, an area of active diagenetic processes, is exceedingly important for understanding peatland dynamics and the diagenesis and geochemistry of atmospherically-deposited materials. In this study, we investigated high resolution carbon (C) accrual and peat decomposition rates at two Sphagnum-rich ombrotrophic bogs and one fen in northern Minnesota, USA by analyzing 1 cm increments from 30 cm thick intact frozen blocks of peat soil. We conducted radiocarbon analysis of Sphagnum cellulose to determine peat age and net C accumulation at each depth interval. Calibrated peat ages were determined using CALIBomb and a compilation of calibration datasets for the pre-bomb period. We fit data with a negative exponential accumulation model and used model-derived parameters to estimate net primary productivity (NPP) and a peat decomposition rate constant k. FTIR spectroscopy and C:N were used to derive humification indices and to chemically characterize the peat. NPP ranged from 180 to 266 g C m -2 year -1 , k ranged from 0.015 to 0.019 year -1 . Net C accumulation rates ranged from 112 to 174 g C m -2 year -1 at 25 years and 70 to 113 g C m -2 year-1 at 50 years. Mass loss was up to 55% during the first 50 years of peat accumulation. Decomposition is greater at depth in the bogs—where 25 cm of peat correspond to 55 years of peat accumulation—than in the fen, where peat age is approximately 25 years at 25 cm depth. Lastly, information on fine-scale variations in peat mass decomposition and loss across ombrotrophic bogs and a fen help interpret other diagenetic processes in peatlands.

54 ENVIRONMENTAL SCIENCES↗

How much carbon can be added to soil by sorption?

Abstract Quantifying the upper limit of stable soil carbon storage is essential for guiding policies to increase soil carbon storage. One pool of carbon considered particularly stable across climate zones and soil types is formed when dissolved organic carbon sorbs to minerals. We quantified, for the first time, the potential of mineral soils to sorb additional dissolved organic carbon (DOC) for six soil orders. We compiled 402 laboratory sorption experiments to estimate the additional DOC sorption potential, that is the potential of excess DOC sorption in addition to the existing background level already sorbed in each soil sample. We estimated this potential using gridded climate and soil geochemical variables within a machine learning model. We find that mid- and low-latitude soils and subsoils have a greater capacity to store DOC by sorption compared to high-latitude soils and topsoils. The global additional DOC sorption potential for six soil orders is estimated to be 107 $$\pm$$ ± 13 Pg C to 1 m depth. If this potential was realized, it would represent a 7% increase in the existing total carbon stock.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Molten Halide Salt Surface Tension: Methods and Correlations

Here, this paper reviews various methods for studying surface tension and their applicability to fluoride and chloride molten salt systems, including a comparison of benefits and drawbacks. Such a comparison aids in experiment design based on desired factors such as scale, accuracy, and repeatability. A detailed review is presented for existing literature data regarding the surface tension of molten fluoride and chloride salts. These reference data were compiled and analyzed to determine cross-validated correlation equations for several alkali and alkaline earth fluoride and chloride salts as functions of temperature. These correlations are necessary for reliable multiphysics modeling approaches as well as accurate design and analysis of multiphase molten salt phenomena such as gas sparging and bubble formation/transport. This analysis supports the development of the thermophysical arm of the Molten Salt Thermal Properties Database (MSTDB-TP) managed by Oak Ridge National Laboratory.

Chloride↗