Search NASA⌕ Search

SEARCH · Search NASA

Results for “core optimization”

Search indexed NASA NTRS and DOE OSTI research on propulsion, heat transfer, battery materials and energy systems. Follow report and document links to the original sources.

Quote a phrase for an exact phrase match. Source license links do not imply unrestricted reuse.

At least 1,171 records · Page 65
All sourcesNASA NTRSDOE OSTI
DOE OSTI2024

MARS-F/K modeling of plasma response and fast ion losses due to RMP in KSTAR

Abstract The toroidal single-fluid magnetohydrodynamic (MHD) code MARS-F (Liu et al 2000 Phys. Plasmas 7 3681) and the MHD-kinetic hybrid code MARS-K (Liu et al 2008 Phys. Plasmas 15 112503) are utilized to study the plasma response to the n = 1 ( n is the toroidal mode number) resonant magnetic perturbation (RMP), applied to suppress the type-I edge localized mode (ELM) in a KSTAR discharge. Both the resistive-rotating and ideal-static plasma models identify strong screening of the resonant radial field harmonics of the applied RMP due to the plasma response, and predict a strong edge-peeling response of the plasma which is consistent with the optimal ELM control coil current configuration adopted in experiment. The RMP-induced radial displacement of the plasma, computed by the resistive-rotating plasma model, agrees reasonably well with that reconstructed from the measured data in the plasma core. Taking into account the drift kinetic response of fast ions, MARS-K hybrid modeling also finds quantitative agreement of the plasma core fluid pressure perturbation with experiment. Based on the MARS-F computed plasma response, a guiding-center orbit-tracing simulation finds about 0.3% of fast ion losses due the n = 1 RMP in the KSTAR ELM control experiment considered. Most losses are associated with counter-current fast ions located near the plasma edge.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗
DOE OSTI2015

Power and Performance Trade-offs for Space Time Adaptive Processing

Computational efficiency – performance relative to power or energy – is one of the most important concerns when designing RADAR processing systems. This paper analyzes power and performance trade-offs for a typical Space Time Adaptive Processing (STAP) application. We study STAP implementations for CUDA and OpenMP on two computationally efficient architectures, Intel Haswell Core I7-4770TE and NVIDIA Kayla with a GK208 GPU. We analyze the power and performance of STAP’s computationally intensive kernels across the two hardware testbeds. We also show the impact and trade-offs of GPU optimization techniques. We show that data parallelism can be exploited for efficient implementation on the Haswell CPU architecture. The GPU architecture is able to process large size data sets without increase in power requirement. The use of shared memory has a significant impact on the power requirement for the GPU. A balance between the use of shared memory and main memory access leads to an improved performance in a typical STAP application.

Gawande, Nitin A.↗
DOE OSTI2017

Cogging Torque Minimization in Transverse Flux Machines

This paper presents the design considerations in cogging torque minimization in two types of transverse flux machines. The machines have a double stator-single rotor configuration with flux concentrating ferrite magnets. One of the machines has pole windings across each leg of an E-Core stator. Another machine has quasi-U-shaped stator cores and a ring winding. The flux in the stator back iron is transverse in both machines. Different methods of cogging torque minimization are investigated. Key methods of cogging torque minimization are identified and used as design variables for optimization using a design of experiments (DOE) based on the Taguchi method. A three-level DOE is performed to reach an optimum solution with minimum simulations. Finite element analysis is used to study the different effects. Two prototypes are being fabricated for experimental verification.

24 POWER TRANSMISSION AND DISTRIBUTION↗
DOE OSTI2018

Cogging torque minimization in transverse flux machines

This study presents the design considerations in cogging torque minimization in two types of transverse flux machines. The machines have a double stator-single rotor configuration with flux concentrating ferrite magnets. One of the machines has pole windings across each leg of an E-Core stator. Another machine has quasi-U-shaped stator cores and a ring winding. The flux in the stator back iron is transverse in both machines. Different methods of cogging torque minimization are investigated. Key methods of cogging torque minimization are identified and used as design variables for optimization using a design of experiments (DOE) based on the Taguchi method. A multi-level DOE is proposed as an optimization method to reach an optimum solution with minimum simulations. The case study is analyzed in a two level DOE optimization. Finite element analysis is used to study the different effects. Two prototypes are fabricated for validating the FEA results.

24 POWER TRANSMISSION AND DISTRIBUTION↗
DOE OSTI2024

xesn: Echo state networks powered by Xarray and Dask

Xesn is a Python package that allows scientists to easily design Echo State Networks (ESNs) for forecasting problems. ESNs are a Recurrent Neural Network architecture introduced by Jaeger (2001) that are part of a class of techniques termed Reservoir Computing. One defining characteristic of these techniques is that all internal weights are determined by a handful of global, scalar parameters, thereby avoiding problems during backpropagation and reducing training time significantly. Because this architecture is conceptually simple, many scientists implement ESNs from scratch, leading to questions about computational performance. Xesn offers a straightforward, standard implementation of ESNs that operates efficiently on CPU and GPU hardware. The package leverages optimization tools to automate the parameter selection process, so that scientists can reduce the time finding a good architecture and focus on using ESNs for their domain application. Importantly, the package flexibly handles forecasting tasks for out-of-core, multi-dimensional datasets, eliminating the need to write parallel programming code. Xesn was initially developed to handle the problem of forecasting weather dynamics, and so it integrates naturally with Python packages that have become familiar to weather and climate scientists such as Xarray (Hoyer & Hamman, 2017). However, the software is ultimately general enough to be utilized in other domains where ESNs have been useful, such as in signal processing (Jaeger & Haas, 2004).

97 MATHEMATICS AND COMPUTING↗
DOE OSTI2016

Composition and Realization of Source-to-Sink High-Performance Flows: File Systems, Storage, Hosts, LAN and WAN

A number of Department of Energy (DOE) science applications, involving exascale computing systems and large experimental facilities, are expected to generate large volumes of data, in the range of petabytes to exabytes, which will be transported over wide-area networks for the purpose of storage, visualization, and analysis. To support such capabilities, significant progress has been made in various components including the deployment of 100 Gbps networks with future 1 Tbps bandwidth, increases in end-host capabilities with multiple cores and buses, capacity improvements in large disk arrays, and deployment of parallel file systems such as Lustre and GPFS. High-performance source-to-sink data flows must be composed of these component systems, which requires significant optimizations of the storage-to-host data and execution paths to match the edge and long-haul network connections. In particular, end systems are currently supported by 10-40 Gbps Network Interface Cards (NIC) and 8-32 Gbps storage Host Channel Adapters (HCAs), which carry the individual flows that collectively must reach network speeds of 100 Gbps and higher. Indeed, such data flows must be synthesized using multicore, multibus hosts connected to high-performance storage systems on one side and to the network on the other side. Current experimental results show that the constituent flows must be optimally composed and preserved from storage systems, across the hosts and the networks with minimal interference. Furthermore, such a capability must be made available transparently to the science users without placing undue demands on them to account for the details of underlying systems and networks. And, this task is expected to become even more complex in the future due to the increasing sophistication of hosts, storage systems, and networks that constitute the high-performance flows. The objectives of this proposal are to (1) develop and test the component technologies and their synthesis methods to achieve source-to-sink high-performance flows, and (2) develop tools that provide these capabilities through simple interfaces to users and applications. In terms of the former, we propose to develop (1) optimization methods that align and transition multiple storage flows to multiple network flows on multicore, multibus hosts; and (2) edge and long-haul network path realization and maintenance using advanced provisioning methods including OSCARS and OpenFlow. We also propose synthesis methods that combine these individual technologies to compose high-performance flows using a collection of constituent storage-network flows, and realize them across the storage and local network connections as well as long-haul connections. We propose to develop automated user tools that profile the hosts, storage systems, and network connections; compose the source-to-sink complex flows; and set up and maintain the needed network connections. These solutions will be tested using (1) 100 Gbps connection(s) between Oak Ridge National Laboratory (ORNL) and Argonne National Laboratory (ANL) with storage systems supported by Lustre and GPFS file systems with an asymmetric connection to University of Memphis (UM); (2) ORNL testbed with multicore and multibus hosts, switches with OpenFlow capabilities, and network emulators; and (3) 100 Gbps connections from ESnet and their Openflow testbed, and other experimental connections. This proposal brings together the expertise and facilities of the two national laboratories, ORNL and ANL, and UM. It also represents a collaboration between DOE and the Department of Defense (DOD) projects at ORNL by sharing technical expertise and personnel costs, and leveraging the existing DOD Extreme Scale Systems Center (ESSC) facilities at ORNL.

97 MATHEMATICS AND COMPUTING↗
DOE OSTI2020

Contributions of Solar + Storage to Future Power Needs

The costs of solar photovoltaics (PV) have been dropping in recent years, leading to increasing installations of solar PV systems and growing interest in how the technology will impact the electric grid. Additionally, as battery costs decline, there is increasing interest in understanding the benefits and limitations of battery storage for the grid as well as potential co-benefits of coupling battery storage and photovoltaics. This paper presents recent methodological developments to more accurately represent the value and limitations of coupled PV and battery systems in capacity expansion models. These are demonstrated using the Resource Planning Model (RPM), which co-optimizes capacity investments, transmission investments, and reduced-order dispatch through 2045. We simulate the evolution of the generation and transmission system in the Western Interconnection both with and without a coupled PV and battery technology option under two core scenarios - a baseline scenario and a high renewable penetration scenario - coupled with sensitivities assuming low and mid PV and battery cost projections. We analyze the degree to which a variety of configurations of coupled PV + Battery systems are able to meet future electricity needs, under which system conditions this coupled technology becomes beneficial to the electric grid and identify the displaced technologies when coupled solar and storage is introduced into the model. We find that capturing the benefits of co-locating these systems becomes increasingly important as the penetration of solar PV rises, and that in particular it is important to accurately capture the ability of these technologies to shift energy, provide firm capacity, and reduce expected curtailment.

14 SOLAR ENERGY↗
DOE OSTI2018

ATF Transient Prescription Tests in TREAT

EXECUTIVE SUMMARY The Transient Reactor Test facility (TREAT) was constructed in the late 1950’s and provided thousands of transient irradiations before being placed in standby mode in 1994. In 2017, it resumed operation in order to reclaim its crucial role in nuclear-heated safety research. TREAT is a transient reactor where inherently-safe core physics, a nimble transient rod drive system, and a philosophy of continual facility improvement work together to enable flexible power maneuvers for fuel safety research. While the facility’s flexible design and multi-mission nature saw historic experiments for numerous transient types, TREAT was not specifically adapted to optimize or demonstrate its full performance capability for Light Water Reactor (LWR) postulated accidents including Hot Zero Power Reactivity Initiated Accidents (HZP-RIA) and Loss of Coolant Accidents (LOCA). The physics of HZP-RIA drive very brief pulses with fairly large energy excursions. TREAT is currently capable of approaching HZP-RIA pulse widths through transients initiated on a large step insertion of reactivity and terminated shortly thereafter by rapid re-insertion of the transient rods (“clipping”). LOCAs are postulated to occur quite differently, starting from normal power operations followed by a long period of lower power decay heat. TREAT is able to simulate LOCA events with an initial flattop transient for tens of seconds, followed by a sizeable power reduction, to a longer segment where specimen fission heating represents internal decay heat generation. Two reactor physics testing campaigns were undertaken to address the HZP-RIA type transients, neither of which had been performed in any great measure historically to address data gaps in the timing, repeatability of clipping and effect of dynamic transient rod motions on core-to-specimen fission power coupling. The first campaign, referred to as the Accident Tolerant Fuel (ATF) transient prescription tests, employed dosimeters in the core to characterize the effect of rod motions on specimen power coupling for clipped, unclipped, and low-level steady state operations each with approximately the same moderate core energy release. This campaign was accompanied by efforts to measure dosimetry and compare results to analytic predictions. The other HZP-RIA campaign, referred to as Narrow Pulse Width (NPW) transient prescriptions, employed higher step insertions with increased core energy release to demonstrate TREAT’s capability in achieving the narrowest-possible pulse width. Additionally, a series of LOCA transient prescriptions were also performed to demonstrate how well TREAT could perform long-duration shaped transients. Both NPW and LOCA transient prescriptions did not include dosimeters but used existing plant power instrumentation to produce transient power data. All three transient prescription campaigns were successfully carried out in TREAT. The ATF-3 transient prescriptions showed that TREAT can perform clipped transients with remarkable repeatability. Measurement and modeling both showed that the power coupling in small, fissile dosimeters does not change by more than 8% between clipped, unclipped, and steady state runs while uncertainty sources in both the modeling and measurement methods were identified and found to be on the order of 20% in total. Overall, the ATF-3 transient prescription tests were successful in determining repeatability and consistency of dosimeter power coupling, developing processes for modeling and measuring this crucial parameter, and demonstrating the need for continued efforts in transient prescription work at TREAT in support of future experiment design and post test data interpretation. The NPW and LOCA transient prescriptions were also successfully performed to exhibit TREAT’s capability for these important LWR accident categories. The NPW transients showed pulse widths of ~90 ms, which were the narrowest ever achieved in TREAT to date and relevant for the upper end range of HZP-RIA simulation. This effort provided crucial data for calibrating kinetic models to be used in enhanced pulse-narrowing strategies in upcoming irradiations. Similarly, The LOCA transient prescriptions showed that TREAT can simulate the needed nuclear heating and event time scales for LOCA fuel safety research and provided essential data for future experiment design.

11 NUCLEAR FUEL CYCLE AND FUEL MATERIALS↗
DOE OSTI2012

KERENA safety concept in the context of the Fukushima accident

Within the last three years AREVA NP and E.On KK finalized the basic design of KERENA which is a medium sized innovative boiling water reactor, based on the operational experience of German BWR nuclear power plants (NPPs). It is a generation III reactor design with a net electrical output of about 1250 MW. It combines active safety equipment of service-proven designs with new passive safety components, both safety classified. The passive systems utilize basic laws of physics, such as gravity and natural convection, enabling them to function without electric power. Even actuation of these systems is performed thanks to basic physic laws. The degree of diversity in component and system design, achieved by combining active and passive equipment, results in a very low core damage frequency. The Fukushima accident enhanced the world wide discussion about the safety of operating nuclear power plants. World wide stress tests for operating nuclear power plants are being performed embracing both natural and man made hazards. Beside the assessment of existing power plants, also new designs are analyzed regarding the system response to beyond design base accidents. KERENA's optimal combination of diversified cooling systems (active and passive) allows passing efficiently such tests, with a high level of confidence. This paper describes the passive safety components and the KERENA reactor behavior after a Fukushima like accident. (authors)

21 SPECIFIC NUCLEAR REACTORS AND ASSOCIATED PLANTS↗
DOE OSTI2020

Boosting the Oxygen Reduction Performance via Tuning the Synergy between Metal Core and Oxide Shell of Metal−Organic Frameworks‐Derived Co@CoO x

Abstract Co core@Co oxide shell (Co@CoO x ) catalysts represent a large family with promising oxygen reduction reaction (ORR) catalytic activity. However, inadequate understanding of Co@CoO x synergy prohibits further pursuit of catalytic performance enhancement. Herein, a Co zeolitic−imidazolate framework was converted into metallic Co, followed by controlled air treatment to form Co@CoO x . The composition and structure evolution as a function of air treatment temperature were studied thoroughly through conventional and synchrotron (both ex‐situ and in‐situ) characterizations, confirming the coexistence of CoO and Co 3 O 4 in the shell. The optimal catalyst showed an ORR half‐wave potential of 0.87 V (vs. RHE) in an alkaline half‐cell and delivered high discharge capacity in an aprotic Li−O 2 battery (7,124 mAh g Cat+C −1 ) and an aqueous Zn−air battery (694 mAh g Zn −1 ) with good performance retention after durability test. Modeling simulation and density functional theory calculation confirmed the charge donation from metal core to oxide shell and shed light on new insights of how metal@metal oxide synergy impacted the ORR via tuning the charge conductivity, oxygen affinity and intermediate transfer pathway. This work opens up a venue to boost ORR catalytic activity from an interfacial synergy perspective.

Wang, Hao↗
DOE OSTI2019

Twin-core sunflower-type photonic quasicrystal fibers incorporated gold, silver, and copper microwire: an ultrashort and broad bandwidth polarization splitter

Polarization splitters are beneficial in the field of passive optical devices which are principally used in the coherent optical communication systems. An ideal polarization splitter must possess an efficient coupling with significant optical bandwidth. Hence, we proposed a novel metal-filled polarization splitter based on twin-core sunflower-type photonic quasicrystal fiber (PQF). The characteristics of the proposed splitter such as coupling length, extinction ratio, and available optical bandwidth were investigated by using the commercially available software, COMSOL Multiphysics. These aforementioned characteristics were determined by optimizing the geometrical parameters of proposed PQF—first by using gold-filled PQF (AuPQF). With optimized geometrical parameters, the splitter achieved an ultra-short coupling length of 132 µm and an ultra-broad bandwidth of 301 nm (wavelength range 1.36–1.68 µm) with an extinction ratio below than − 20 dB which comprised E + S+C + L+U band. Secondly, a comparative study to use silver- and copper-filled PQF (AgPQF and CuPQF) was explored. Both AgPQF and CuPQF retained a short length with adequate bandwidth and a significant extinction ratio below than − 20 dB. The AgPQF has a coupling length of 137 µm with a bandwidth of 136 nm which operated at 1.44 µm wavelength, while CuPQF with 134 µm lengths with a bandwidth of 149 nm and operated at 1.50 µm wavelengths.

36 MATERIALS SCIENCE↗
DOE OSTI2017

Plasma Radiation Source on the Basis of the Gas Puff with Outer Plasma Shell in the Circuit of a Mega-Ampere Load Current Doubler

Characteristics of Z-pinch plasma radiation in the form of a double shell neon gas puff with outer plasma shell are investigated in the microsecond implosion mode. Experiments are performed using a GIT-12 mega-joule generator with load current doubler having a ferromagnetic core at implosion currents up to 5 MA. Conditions for matching of the nonlinear load with the mega-ampere current multiplier circuit are determined. The load parameters (plasma shell characteristics and mass and geometry of gas puff shells) are optimized on the energy supplied to the gas puff and n energy characteristics of radiation. It is established that the best modes of K-shell radiation in neon are realized for such radial distribution of the gas-puff material at which the compression velocity of the shell is close to a constant and amounts to 27–30 cm/μs. In these modes, up to 40% of energy supplied to the gas puff is converted into K-shell radiation. The reasons limiting the efficiency of the radiation source with increasing implosion current are analyzed. A modernized version of the energy supply from the current doubler to the Z-pinch is proposed.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗
DOE OSTI2012

Basic data of ions in He-air mixtures for fluid modeling of low temperature plasma jets

The basic ion data such as interaction potential parameters, elastic and inelastic collision cross sections, transport coefficients (reduced mobility and diffusion coefficients) and reaction coefficients have been analysed and determined for the case of He{sup +}, N{sub 2}{sup +}, and O{sub 2}{sup +} in He-dry air mixtures. The ion transport and reaction coefficients have been determined from an optimized Monte Carlo simulation using calculated elastic and experimentally fitted inelastic collision cross sections. The elastic momentum transfer cross sections have been calculated from a semi-classical JWKB (Jeffreys Wentzel Kramers Brillouin) approximation based on a (6-4) rigid core interaction potential model. The inelastic cross sections have been fitted using the measured reaction coefficients, such as, for instance, the non resonant charge transfer coefficients. The cross section sets involving elastic and inelastic processes were then validated using either the measured reduced mobility whenever available in the literature or the zero-field mobility calculated from Satoh's relation, and potential parameters available in the literature. From the sets of elastic and inelastic collision cross sections thus obtained for the first time for He{sup +}/N{sub 2}, He{sup +}/O{sub 2}, N{sub 2}{sup +}/He, and O{sub 2}{sup +}/He systems, the ion transport and reaction coefficients were calculated in the pure gases over a wide range of the density reduced electric field E/N. Then, from the present cross section and other literature sets, the ion mobility and the longitudinal and transverse diffusion coefficients were calculated for different concentrations of air in He in the case of He{sup +}, N{sub 2}{sup +}, O{sub 2}{sup +}, and also O{sup -} ions.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗
DOE OSTI2021

HAM: Hotspot-Aware Manager for Improving Communications with 3D-Stacked Memory

merging High-Performance Computing (HPC) workloads, such as graph analytics, machine learning, and big data science, are data-intensive. Data-intensive workloads usually present fine-grained memory accesses with limited or no data locality, and thus incur frequent cache misses and low utilization of memory bandwidth. 3D-stacked memory devices such as Hybrid Memory Cube (HMC) and High Bandwidth Memory (HBM) can provide significantly higher bandwidth than conventional memory modules. However, the traditional interfaces and optimization methods for JEDEC DDR devices do not allow to fully exploit the potential performance of 3D-stacked memory with the massive amount of irregular memory accesses of data-intensive applications. In this paper, we propose a novel Hotspot-Aware Manager (HAM) infrastructure for 3D-stacked memory devices capable of optimizing memory access streams via request aggregation, hotspot detection, and in-memory prefetching. %and an associated hotspot-aware page policy. We present the HAM design and implementation, and simulate it on a system using RISC-V embedded cores with attached HMC devices. We extensively evaluate HAM with over 12 benchmarks and applications representing diverse irregular memory access patterns. The results show that, on average, HAM reduces redundant requests by 37.51\% and increases the prefetch buffer hit rate by 4.2 times, compared to a baseline streaming prefetcher. On the selected benchmark set, HAM provides performance gains of 21.81\% in average (up to 34.28\%) and power savings of 35.07\% over a standard 3D-stacked memory.

Wang, Xi↗
DOE OSTI2019

Scalable Deep Learning via I/O Analysis and Optimization

Scalable deep neural network training has been gaining prominence because of the increasing importance of deep learning in a multitude of scientific and commercial domains. Consequently, a number of researchers have investigated techniques to optimize deep learning systems. Much of the prior work has focused on runtime and algorithmic enhancements to optimize the computation and communication. Despite these enhancements, however, deep learning systems still suffer from scalability limitations, particularly with respect to data I/O. This situation is especially true for training models where the computation can be effectively parallelized, leaving I/O as the major bottleneck. In fact, our analysis shows that I/O can take up to 90% of the total training time. Thus, in this article, we first analyze LMDB, the most widely used I/O subsystem of deep learning frameworks, to understand the causes of this I/O inefficiency. Based on our analysis, we propose LMDBIO—an optimized I/O plugin for scalable deep learning. LMDBIO includes six novel optimizations that together address the various shortcomings in existing I/O for deep learning. Lastly, our experimental results show that LMDBIO significantly outperforms LMDB in all cases and improves overall application performance by up to 65-fold on a 9,216-core system.

97 MATHEMATICS AND COMPUTING↗
DOE OSTI2025

JGI-Trichoderma v1.0

There is a series of Python and bash scripts to parse genomics datasets used to evaluate the coevolution of gene families and the feature importance of gene families using an SVM classifier. - Cover analysis: takes a list of single-copy genes in a set of genomes, aligns and builds the gene trees to determine if two gene families have a signature of covariation with one another. It parses the files to run phykit cover script described here: https://jlsteenwyk.com/PhyKIT/usage/index.html - SVM-classifier: This Python script is an SVM-based genomic classifier designed for biological data analysis. It combines machine learning with feature selection to identify important genomic markers and classify biological samples. Core Functionality: The script uses Support Vector Machines from scikit-learn to classify genomic data, incorporating SelectKBest for automated feature selection and leave-one-out cross-validation for performance assessment. It operates in multiple modes: feature ranking, optimal combination discovery, and sample prediction. Primary Applications: Genomic sample classification and biomarker discovery Feature importance analysis in high-dimensional biological datasets Prediction of sample categories based on genomic profiles Research applications requiring robust classification of biological data Key Advantages: High-dimensional handling: SVMs excel with genomic data's typical high feature-to-sample ratios Integrated feature selection: Reduces noise and computational overhead while identifying key markers Probability estimation: Provides confidence scores essential for biological interpretation Validation robustness: Leave-one-out cross-validation ensures reliable performance metrics Operational flexibility: Multiple analysis modes support different research phases from exploration to prediction

Stecca Steindorff, Andrei [Lawrence Berkeley Natio↗
DOE OSTI2013

PoPLAR: Portal for Petascale Lifescience Applications and Research

Background: We are focusing specifically on fast data analysis and retrieval in bioinformatics that will have a direct impact on the quality of human health and the environment. The exponential growth of data generated in biology research, from small atoms to big ecosystems, necessitates an increasingly large computational component to perform analyses. Novel DNA sequencing technologies and complementary high-throughput approaches–such as proteomics, genomics, metabolomics, and meta-genomics–drive data-intensive bioinformatics. While individual research centers or universities could once provide for these applications, this is no longer the case. Today, only specialized national centers can deliver the level of computing resources required to meet the challenges posed by rapid data growth and the resulting computational demand. Consequently, we are developing massively parallel applications to analyze the growing flood of biological data and contribute to the rapid discovery of novel knowledge. Methods: The efforts of previous National Science Foundation (NSF) projects provided for the generation of parallel modules for widely used bioinformatics applications on the Kraken supercomputer. We have profiled and optimized the code of some of the scientific community’s most widely used desktop and small-cluster-based applications, including BLAST from the National Center for Biotechnology Information (NCBI), HMMER, and MUSCLE; scaled them to tens of thousands of cores on high-performance computing (HPC) architectures; made them robust and portable to next-generation architectures; and incorporated these parallel applications in science gateways with a web-based portal. Results: This paper will discuss the various developmental stages, challenges, and solutions involved in taking bioinformatics applications from the desktop to petascale with a front-end portal for very-large-scale data analysis in the life sciences. Conclusions: This research will help to bridge the gap between the rate of data generation and the speed at which scientists can study this data. The ability to rapidly analyze data at such a large scale is having a significant, direct impact on science achieved by collaborators who are currently using these tools on supercomputers.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2025

Comparative study of spectral broadening and few-cycle compression of Yb:KGW laser pulses in gas-filled hollow-core fibers

While industrial-grade Yb-based amplifiers have become very prevalent, their limited gain bandwidth has created a large demand for robust spectral broadening techniques that allow for few-cycle pulse compression. In this work, we perform a comparative study between several atomic and molecular gases as media for spectral broadening in a hollow-core fiber geometry. Exploiting nonlinearities such as self-phase modulation, self-steepening, and stimulated Raman scattering, we explore the extent of spectral broadening and its dependence on gas pressure, the critical power for self-focusing, and the optimal regime for few-cycle pulse compression. Using a 3-mJ, 200-fs input laser pulses, we achieve 17 fs, few-cycle pulses with 80% fiber energy transmission efficiency. The optimal parameters can be scaled for higher or lower input pulse energies with appropriate gas parameters and fiber geometry.

Shalaby, Islam (ORCID:0000000332846636)↗