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At least 1,513 records · Page 84

Optimal Control of an Oscillating Surge Wave Energy Converter

During this project, we experimentally investigated the hydrodynamics and performance of a laboratory-scale oscillating surge wave energy converter (OSWEC).We looked at how flap buoyancy and driveline losses (primarily in the form of stiction) affected the dynamics and performance of the device. In addition, we assessed the influence of flap profile (rounded vs. square edges) on OSWEC hydrodynamics. Through this, we were able to develop a deeper understanding of OSWEC performance and provide guidance on strategies to counteract artifacts that may be present in laboratory models, but are absent in field-scale devices. To do this, we tested a laboratory-scale OSWEC in the Sea Wave Environmental Lab (SWEL) wave tank at the National Renewable Energy Laboratory (NREL). We ran several types of experiments to investigate the hydrodynamics and performance of the device. Overall, we achieved the overall goal of experimentally investigating the hydrodynamics and performance of this device. We discovered important and unexpected trends in performance, and collected time-resolved data to help us further investigate the underlying hydrodynamics responsible for these trends. In addition, we are currently using the time-resolved data from these experiments to build data-driven models of the dynamics, which can in turn be used to inform data-driven model predictive control of this device and address this objective in the future.

16 TIDAL AND WAVE POWER↗

Substituent and Heteroatom Effects on π–π Interactions: Evidence That Parallel-Displaced π-Stacking is Not Driven by Quadrupolar Electrostatics

Stacking interactions are a recurring motif in supramolecular chemistry and biochemistry, where a persistent theme is a preference for parallel-displaced aromatic rings rather than face-to-face π-stacking. This is usually explained in terms of quadrupole–quadrupole interactions between the arene moieties but that interpretation is inconsistent with accurate calculations, which reveal that the quadrupolar picture is qualitatively wrong. At typical π-stacking distances, quadrupolar electrostatics may differ in sign from an exact calculation based on charge densities of the interacting arenes. We apply symmetry-adapted perturbation theory to dimers composed of substituted benzene and various aromatic heterocycles, which display a wide range of electrostatic interactions, and we investigate the interplay of Pauli repulsion, dispersion, and electrostatics as it pertains to parallel-displaced π-stacking. Profiles of energy components along cofacial slip-stacking coordinates support a prominent role for the “van der Waals model” (dispersion in competition with Pauli repulsion), even for polar monomers where electrostatic interactions are significant. While electrostatic interactions are necessary to explain the optimal face-to-face π-stacking distance and to account for the relative orientation of one polar arene with respect to another, we find no evidence to support continued invocation of quadrupolar electrostatics as a basis for π-stacking. Our results suggest that a driving force for offset-stacking exists even in the absence of electrostatic interactions. Consequently, tuning electrostatics via functionalization does not guarantee that slip-stacking can be avoided. This has implications for rational design of soft materials and other supramolecular architectures.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Quantifying UAS Observation Error Variance Used in Data Assimilation Systems and Its Impact on Predictive Skill

Observation error determines the weights of the observations and background state used in data assimilation to generate analyses. Quantifying observation error is critical for the optimal assimilation of observational data sets. Uncrewed Aircraft System (UAS) observations have shown potential benefits in filling observational gaps in the lower atmosphere; however, characterization of their error characteristics has been limited. To optimize the use of UAS observations in numerical weather prediction, UAS observation error is estimated based on the 3‐cornered hat diagnostic approach which uses three independent estimates of the atmospheric state. This approach is applied to data from the 2018 Lower Atmospheric Profiling Studies at Elevation‐a Remotely‐piloted Aircraft Team Experiment field campaign using collocated UAS and rawinsonde observations along with output from a set of convection‐permitting model simulations. The estimated observation error values for UAS temperature, wind, and relative humidity measurements were found to be only weakly dependent on height AGL with mean values equal to 0.5°C, 0.8 m s −1 , and 3%, respectively. Only the newly estimated observation error for temperature differed from that previously used to assimilate commercial aircraft observations into global models (1.0°C). However, using this reduced temperature observation error produced more accurate mesoscale analyses and forecasts of both terrain‐driven flows and convection initiation generated by colliding outflow boundaries within the San Luis Valley of Colorado.

54 ENVIRONMENTAL SCIENCES↗

Mutual optical intensity propagation through non-ideal mirrors

The mutual optical intensity (MOI) model is extended to include the propagation of partially coherent radiation through non-ideal mirrors. The propagation of the MOI from the incident to the exit plane of the mirror is realised by local ray tracing. The effects of figure errors can be expressed as phase shifts obtained by either the phase projection approach or the direct path length method. Using the MOI model, the effects of figure errors are studied for diffraction-limited cases using elliptical cylinder mirrors. Figure errors with low spatial frequencies can vary the intensity distribution, redistribute the local coherence function and distort the wavefront, but have no effect on the global degree of coherence. The MOI model is benchmarked against HYBRID and the multi-electron Synchrotron Radiation Workshop ( SRW ) code. The results show that the MOI model gives accurate results under different coherence conditions of the beam. Other than intensity profiles, the MOI model can also provide the wavefront and the local coherence function at any location along the beamline. The capability of tuning the trade-off between accuracy and efficiency makes the MOI model an ideal tool for beamline design and optimization.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Extinction Monitoring of Pulsed Proton Beams Using FPGA-Based Peak Detection

The Mu2e experiment at Fermilab imposes stringent requirements on the elimination of out-of-time beam in its pulsed proton beam - a requirement known as "extinction". We present a method to measure the out-of-time particle rates to calculate the level of extinction in the inter-pulse gaps. The proposed method utilizes an array of quartz Cherenkov radiators and photomultiplier tubes to detect particles scattered from a vacuum chamber in the M4 transfer beamline at Fermilab.The measurement will employ a new μTCA-based FPGA system for data acquisition and signal processing, utilizing real-time peak detection algorithms to count scattered beam particles. By integrating data over many transfers, the time profile of the out-of-time beam will be resolved to fractional levels relative to that of the in-time beam. These results are compared with G4beamline simulations to validate models of beam transport, dynamics, and extinction, providing critical input for optimizing beam delivery to Mu2e.

Hensley, Ryan [UC, Davis]↗

Integrated Heat Exchanger-Phase Change Material Thermal Energy Storage System

The purpose of this study is to experimentally investigate the thermal performance of an innovative thermal energy storage (TES) system that combines the advantages of the phase-change material (PCM)/graphite foam latent heat TES medium developed at Argonne National Laboratory (Argonne) and the internally supported plate-fin (ISPE) cell architecture heat transfer fluid (HTF) flow channels developed at Brayton Energy (Brayton). Several essential tasks were accomplished: (1) Thermal property characterization. Thermal properties of the graphite foam were characterized, providing necessary data for experimental result analysis and numerical simulation. (2) Design and optimization of lab-scale test module. Based on Brayton’s full-scale heat exchanger (HX)-TES system, the experimental test module was designed, optimized, and fabricated. (3) Thermal performance testing and data analysis. Five cycle tests were successfully conducted—including one with approximately 3.5 psig of pressure applied to the diaphragms—to investigate the thermal performance of the experimental test module for charging and discharging. Temperature profiles were generated for each charging test and discharging test as a function of time. The temperature profiles clearly show three TES stages: sensible heat (temperature increase), latent heat (melting), and sensible heat (temperature increase) for the charging process. Similarly, the temperature profiles clearly show three thermal energy release stages: sensible heat (temperature decrease), latent heat (solidification), and sensible heat (temperature decrease). Melting and solidification of the PCM generally occurred in relatively narrow temperature ranges, indicated by the flattened temperature regions in the temperature profiles. These phase changes ranged approximately 3°C for melting and 3.5°C for solidification. The charging and discharging temperature profiles were similar for similar experimental parameter tests whether or not pressure was applied to the diaphragm to eliminate the gap between the HX surface and the TES subsystem. This indicates that the effect of a small gap between the HX surface and the TES subsystem is insignificant for charging and discharging. (4) Comparison of experimental data and simulation results. We compared the experimental data to the numerical simulation results. Numerical simulations were conducted by using the ANSYS FLUENT 2019 R3 commercial computational fluid dynamics software. The predicted phase-change times agreed reasonably well with those from the experimental data. In most cases, the estimated time differences between the relative phase changes were within 16%. The predicted start and end times for the charging process agreed well with those from the experimental data. However, the simulation results showed earlier start and end times than the experimental data for the discharging process. Overall, the experimental data and its comparison with the simulation predictions verified the technical viability of the integrated ISPF HX-PCM/graphite foam latent-heat TES system.

25 ENERGY STORAGE↗

Shaping of Cams for High-Torque Variable-Speed Drives

Attention focuses on the calculation of the working profile for three-dimensional cams in an oscillatory lever mechanism with a contacting spherical roller. That permits the creation of 3D surfaces for milling of the cams on CNC machine tools. Methods are proposed for determining the pressure angle and selecting the optimal parameters of the oscillatory mechanism in a nonfrictional high-torque variable-speed drive.

42 ENGINEERING↗

Optimum solar electric interplanetary mission opportunities from 1975 to 1990

A collection of optimum trajectory and spacecraft data is presented for unmanned interplanetary missions from 1975 to 1990 using solar electric propulsion. Data are presented for one-way flyby and orbiter missions from Earth to Venus, Mars, Jupiter, Saturn, Uranus, Neptune, and Pluto. The solar system model assumes planetary ephemerides which very closely approximate the true motion of the planets. Direct and indirect flight profiles are investigated. Data are presented for two representative flight times for each mission. The launch vehicle is the Titan 3 B (core)/Centaur, and a constant jet exhaust speed solar electric propulsion system having a specific mass of 30 kg/kw is completely optimized in terms of power level and jet exhaust speed to yield maximum net spacecraft mass. The hyperbolic excess speeds at departure and arrival and the launch date are optimized for each mission. For orbiter missions, a chemical retro stage is used to brake the spacecraft into a highly eccentric capture orbit about the target planet.

Mann, F. I.↗

Microgravity Flight - Accommodating Non-Human Primates

Spacelab Life Sciences-3 (SLS-3) was scheduled to be the first United States man-tended microgravity flight containing Rhesus monkeys. The goal of this flight as in the five untended Russian COSMOS Bion flights and an earlier American Biosatellite flight, was to understand the biomedical and biological effects of a microgravity environment using the non-human primate as human surrogate. The SLS-3/Rhesus Project and COSMOS Primate-BIOS flights all utilized the rhesus monkey Macaca mulatta. The ultimate objective of all flights with an animal surrogate has been to evaluate and understand biological mechanisms at both the system and cellular level, thus enabling rational effective countermeasures for future long duration human activity under microgravity conditions and enabling technical application to correction of common human physiological problems within earth's gravity, e.g., muscle strength and reloading, osteoporosis, immune deficiency diseases. Hardware developed for the SLS-3/Rhesus Project was the result of a joint effort with the French Centre National d'Etudes Spatiales (CNES) and the United States National Aeronautics and Space Administration (NASA) extending over the last decade. The flight hardware design and development required implementation of sufficient automation to insure flight crew and animal bio-isolation and maintenance with minimal impact to crew activities. A variety of hardware of varying functional capabilities was developed to support the scientific objectives of the original 22 combined French and American experiments, along with 5 Russian co-investigations, including musculoskeletal, metabolic, and behavioral studies. Unique elements of the Rhesus Research Facility (RRF) included separation of waste for daily delivery of urine and fecal samples for metabolic studies and a psychomotor test system for behavioral studies along with monitored food measurement. As in untended flights, telemetry measurements would allow monitoring of thermoregulation, muscular, and cardiac responses to weightlessness. In contrast, the five completed Cosmos/Bion flights, lacked the metabolic samples and behavioral task monitoring, but did facilitate studies of the neurovestibular system during several of the flights. The RRF accommodated two adult 8-11 kg rhesus monkeys, while the Russian experiments and hardware were configured for a younger animal in the 44 kg range. Both the American and Russian hardware maintained a controlled environmental system, specifically temperature, humidity, a timed lighting cycle, and had means for providing food and fluids to the animal(s). Crew availability during a Shuttle mission was to be an optimal condition for retrieval and refrigeration of the animal urine samples along with a manual calcein injection which could lead to greater understanding of bone calcium incorporation. A special portable bioisolation glove box was under development to support this aspect of the experiment profile along with the capability of any contingency human intervention. As a result of recent U.S./Russian negotiations, funding for Space Station, and a series of other events, the SLS-3 mission was cancelled and applicable Rhesus Project experiments incorporated into the Russian Bion 11 and 12 missions. A presentation of the RRF and COSMOS/Bion rhesus hardware is presented along with current plans for the hardware.

Dalton, Bonnie P.↗

Microgravity Flight: Accommodating Non-Human Primates

Spacelab Life Sciences-3 (SLS-3) was scheduled to be the first United States man-tended microgravity flight containing Rhesus monkeys. The goal of this flight as in the five untended Russian COSMOS Bion flights and an earlier American Biosatellite flight, was to understand the biomedical and biological effects of a microgravity environment using the non-human primate as human surrogate. The SLS-3/Rhesus Project and COSMOS Primate-BIOS flights all utilized the rhesus monkey, Macaca mulatta. The ultimate objective of all flights with an animal surrogate has been to evaluate and understand biological mechanisms at both the system and cellular level, thus enabling rational effective countermeasures for future long duration human activity under microgravity conditions and enabling technical application to correction of common human physiological problems within earth's gravity, e.g., muscle strength and reloading, osteoporosis, immune deficiency diseases. Hardware developed for the SLS-3/Rhesus Project was the result of a joint effort with the French Centre National d'Etudes Spatiales (CNES) and the United States National Aeronautics and Space Administration (NASA) extending over the last decade. The flight hardware design and development required implementation of sufficient automation to insure flight crew and animal bio-isolation and maintenance with minimal impact to crew activities. A variety of hardware of varying functional capabilities was developed to support the scientific objectives of the original 22 combined French and American experiments, along with 5 Russian co-investigations, including musculoskeletal, metabolic, and behavioral studies. Unique elements of the Rhesus Research Facility (RRF) included separation of waste for daily delivery of urine and fecal samples for metabolic studies and a psychomotor test system for behavioral studies along with monitored food measurement. As in untended flights, telemetry measurements would allow monitoring of thermoregulation, muscular, and cardiac responses to weightlessness. In contrast, the five completed Cosmos/Bion flights, lacked the metabolic samples and behavioral task monitoring, but did facilitate studies of the neurovestibular system during several of the flights. The RRF accommodated two adult 8-11 kg rhesus monkeys, while the Russian experiments and hardware were configured for a younger animal in the 44 kg range. Both the American and Russian hardware maintained a controlled environmental system, specifically temperature, humidity, a timed lighting cycle, and had means for providing food and fluids to the animal(s). Crew availability during a Shuttle mission was to be an optimal condition for retrieval and refrigeration of the animal urine samples along with a manual calcein injection which could lead to greater understanding of bone calcium incorporation. A special portable bioisolation glove box was under development to support this aspect of the experiment profile along with the capability of any contingency human intervention. As a result of recent U.S./Russian negotiations, funding for Space Station, and a series of other events, the SLS-3 mission was cancelled and applicable Rhesus Project experiments incorporated into the Russian Bion 11 and 12 missions. A presentation of the RRF and COSMOS/Bion rhesus hardware is presented along with current plans for the hardware.

Dalton, Bonnie P.↗

A FDTD Solution of Scattering of Laser Beam with Orbital Angular Momentum by Dielectric Particles: Far-Field Characteristics

Electromagnetic (EM) beams with orbital angular momentum (OAM) may have great potential applications in communication technology and in remote sensing of the Earth-atmosphere system and outer planets. Study of their interaction with optical lenses and dielectric or metallic objects, or scattering of them by particles in the Earth-atmosphere system, is a necessary step to explore the advantage of the OAM EM beams. In this study, the 3-dimensional (3D) scattered-field (SF) finite-difference time domain (FDTD) technique with the convolutional perfectly matched layer (CPML) absorbing boundary conditions (ABC) is applied to calculate the scattering of the purely azimuthal (the radial mode number is assumed to be zero) Laguerre–Gaussian (LG) beams with the OAM by dielectric particles. We found that for OAM beam׳s interaction with dielectric particles, the forward-scattering peak in the conventional phase function (P11) disappears, and light scattering peak occurs at a scattering angle of ~15° to 45°. The disappearance of forward-scattering peak means that, in laser communications most of the particle-scattered noise cannot enter the receiver, thus the received light is optimally the original OAM-encoded signal. This feature of the OAM beam also implies that in lidar remote sensing of the atmospheric particulates, most of the multiple-scattering energy will be off lidar sensors, and this may result in an accurate profiling of particle layers in the atmosphere or in the oceans by lidar, or even in the ground when a ground penetration radar (GPR) with the OAM is applied. This far-field characteristics of the scattered OAM light also imply that the optical theorem, which is derived from plane-parallel wave scattering case and relates the forward scattering amplitude to the total cross section of the scatterer, is invalid for the scattering of OAM beams by dielectric particles.

Electromagnetic beams↗

An Integrated Software Architecture for Solar Cruiser Mission Design and Navigation

Solar Cruiser is a solar sailing mission, riding as a secondary payload to the Interstellar Mapping and Acceleration Probe (IMAP) mission, expected to launch in February of 2025. The Solar Cruiser vehicle will generate thrust via a complex, low-thrust solar sail. The extreme low-thrust nature of the solar sail will leave Solar Cruiser highly sensitive to external environmental effects (such as solar radiation pressure and high-order gravitational perturbations) throughout the entirety of flight. Because of this, preliminary & operational optimization routines must be intricately tied to high-order predictive propagation models to ensure the greatest possible confidence in mission success. The Solar Cruiser Mission Design and Navigation (MDNav) team has designed a software tool suite, employing the latest in software containerization technology, to accomplish this task, allowing for seamless development across several users and operating systems. Combining JPL’s Monte toolkit with high-performance optimizers written by researchers at the University of Alabama, the proposed architecture allows for instant verification of optimized trajectories within the same development environment that the optimization takes place, removing the need for mission designers and navigators to switch between tools. The MDNav software suite itself is separated from the development and operational scripts to be used in flight, which allows for maintaining a low-footprint version control profile – thus avoiding unnecessary file bloating. This paper discusses the historical differences between previous iterations of the Solar Cruiser MDNav tool suite and the current iteration, planned operational interfaces of the tool with other software and subsystems, and the planned path forward in maintaining containerization services for the software throughout the lifetime of Solar Cruiser.

Containerization↗

An Integrated Software Architecture for Solar Cruiser Mission Design and Navigation

Solar Cruiser is a solar sailing mission, riding as a secondary payload to the Interstellar Mapping and Acceleration Probe (IMAP) mission, expected to launch in February of 2025. The Solar Cruiser vehicle will generate thrust via a complex, low-thrust solar sail. The extreme low-thrust nature of the solar sail will leave Solar Cruiser highly sensitive to external environmental effects (such as solar radiation pressure and high-order gravitational perturbations) throughout the entirety of flight. Because of this, preliminary & operational optimization routines must be intricately tied to high-order predictive propagation models to ensure the greatest possible confidence in mission success. The Solar Cruiser Mission Design and Navigation (MDNav) team has designed a software tool suite, employing the latest in software containerization technology, to accomplish this task, allowing for seamless development across several users and operating systems. Combining JPL’s Monte toolkit with University of Alabama’s high-performance optimizer, ASSET, the proposed architecture allows for instant verification of optimized trajectories within the same development environment that the optimization takes place, removing the need for mission designers and navigators to switch between tools. The MDNav software suite itself is separated from the development and operational scripts to be used in flight, which allows for maintaining a low-footprint version control profile – thus avoiding unnecessary file bloating. This paper discusses the historical differences between previous iterations of the Solar Cruiser MDNav tool suite and the current iteration, planned operational interfaces of the tool with other software and subsystems, and the planned path forward in maintaining containerization services for the software throughout the lifetime of Solar Cruiser.

solar cruiser↗

The NASA JSC Hypervelocity Impact Technology (HVIT) Office

- HVIT’s operational objectives for NASA, commercial, and international partners are to 1) help to define MMOD risk requirements 2) provide assessments that identify risk drivers for a specific spacecraft design, and 3) work to design and optimize shielding technologies based on increasing performance and reducing mass. - The use of Bumper-code underpins all risk assessments provided by HVIT – by using a complete FEM model, Bumper can provide a wholistic view of risk for a given design and mission profile. - A full risk assessment, however, requires an iterative approach, where Bumper is first used to identify potential risk drivers. Subsequent analysis can focus on iterating the shield design in highest risk areas. And may include the refinement of BLEs through testing, design modification, or reexamination of the failure criteria. - HVIT utilizes a wide-range of expertise to provide the most accurate risk assessments possible – areas of active research are highlighted below.

hypervelocity impact↗

Magneto-optical study of Nb thin films for superconducting qubits

Among the recognized sources of decoherence in superconducting qubits, the spatial inhomogeneity of the superconducting state and the possible presence of magnetic-flux vortices remain comparatively underexplored. Niobium is commonly used as a structural material in transmon qubits that host Josephson junctions, and excess dissipation anywhere in the transmon can become a bottleneck that limits overall quantum performance. The metal/substrate interfacial layer may simultaneously host pair-breaking loss channels (e.g., two-level systems, TLS) and control thermal transport, thereby affecting dissipation and temperature stability. Here, we use quantitative magneto-optical imaging of the magnetic-flux distribution to characterize the homogeneity of the superconducting state and the critical current density, $j_{c}$, in niobium films fabricated under different sputtering conditions. The imaging reveals distinct flux-penetration regimes, ranging from a nearly ideal Bean critical state to strongly nonuniform thermo-magnetic dendritic avalanches. By fitting the measured magnetic-induction profiles, we extract $j_{c}$ and correlate it with film physical properties and with measured qubit internal quality factors. Our results indicate that the Nb/Si interlayer can be a significant contributor to decoherence and should be considered an important factor that must be optimized.

Datta, Amlan [Ames Lab; Iowa State U.]↗

GLOW: The Goddard Lidar Observatory for Winds

GLOW (Goddard Lidar Observatory for Winds) is a mobile Doppler lidar system which uses direct detection Doppler lidar techniques to measure wind profiles from the surface into the lower stratosphere. The system is contained in a modified van to allow deployment in field operations. The lidar system uses a Nd:YAG laser transmitter to measure winds using either aerosol backscatter at 1064 nm or molecular backscatter at 355 nm. The receiver telescope is a 45 cm Dall-Kirkham which is fiber coupled to separate Doppler receivers, one optimized for the aerosol backscatter wind measurement and another optimized for the molecular backscatter wind measurement. The receivers are implementations of the 'double edge' technique and use high spectral resolution Fabry-Perot etalons to measure the Doppler shift. A 45 cm aperture azimuth-over-elevation scanner is mounted on the roof of the van to allow full sky access and a variety of scanning options. GLOW is intended to be used as a deployable field system for studying atmospheric dynamics and transport and can also serve as a testbed to evaluate candidate technologies developed for use in future spaceborne systems. In addition, it can be used for calibration/validation activities following launch of spaceborne wind lidar systems. A description of the mobile system is presented along with the examples of lidar wind profiles obtained with the system.

Gentry, Bruce M.↗

GLOW- The Goddard Lidar Observatory for Winds

GLOW (Goddard Lidar Observatory for Winds) is a mobile Doppler lidar system which uses direct detection Doppler lidar techniques to measure wind profiles from the surface into the lower stratosphere. The system is contained in a modified van to allow deployment in field operations. The lidar system uses a Nd:YAG laser transmitter to measure winds using either aerosol backscatter at 1064 nm or molecular backscatter at 355 nm. The receiver telescope is a 45 cm Dall-Kirkham which is fiber coupled to separate Doppler receivers, one optimized for the aerosol backscatter wind measurement and another optimized for the molecular backscatter wind measurement. The receivers are implementations of the 'double edge' technique and use high spectral resolution Fabry-Perot etalons to measure the Doppler shift. A 45 cm aperture azimuth-over-elevation scanner is mounted on the roof of the van to allow full sky access and a variety of scanning options. GLOW is intended to be used as a deployable field system for studying atmospheric dynamics and transport and can also serve as a testbed to evaluate candidate technologies developed for use in future spaceborne systems. In addition, it can be used for calibration/validation activities following launch of spaceborne wind lidar systems. A description of the mobile system is presented along with the examples of lidar wind profiles obtained with the system.

Gentry, Bruce M.↗

An FPGA-based hardware accelerator supporting sensitive sequence homology filtering with profile hidden Markov models

Abstract Background Sequence alignment lies at the heart of genome sequence annotation. While the BLAST suite of alignment tools has long held an important role in alignment-based sequence database search, greater sensitivity is achieved through the use of profile hidden Markov models (pHMMs). Here, we describe an FPGA hardware accelerator, called HAVAC, that targets a key bottleneck step (SSV) in the analysis pipeline of the popular pHMM alignment tool, HMMER. Results The HAVAC kernel calculates the SSV matrix at 1739 GCUPS on a $$\sim$$ ∼ $3000 Xilinx Alveo U50 FPGA accelerator card, $$\sim$$ ∼ 227× faster than the optimized SSV implementation in nhmmer . Accounting for PCI-e data transfer data processing, HAVAC is 65× faster than nhmmer’s SSV with one thread and 35× faster than nhmmer with four threads, and uses $$\sim$$ ∼ 31% the energy of a traditional high end Intel CPU. Conclusions HAVAC demonstrates the potential offered by FPGA hardware accelerators to produce dramatic speed gains in sequence annotation and related bioinformatics applications. Because these computations are performed on a co-processor, the host CPU remains free to simultaneously compute other aspects of the analysis pipeline.

59 BASIC BIOLOGICAL SCIENCES↗