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Initiation of polymer degradation via transfer of infectious species

Proposed for publication in Nature.

Clough, Roger L.; Jones, Gary D.

A novel dual stage chemiluminescence detection system incorporating individually controlled hot stages has been developed and applied to probe for material interaction effects during polymer degradation. Utilization of this system has resulted in experimental confirmation for the first time that in an oxidizing environment a degrading polymer A (in this case polypropylene, PP) is capable of infecting a different polymer B (in this case polybutadiene, HTPB) over a relatively large distance. In the presence of the infectious degrading polymer A, the thermal degradation of polymer B is observed over a significantly shorter time period. Consistent with infectious volatiles from material A initiating the degradation process in material B it was demonstrated that traces (micrograms) of a thermally sensitive peroxide in the vicinity of PP could induce degradation remotely. This observation documents cross-infectious phenomena between different polymers and has major consequences for polymer interactions, understanding fundamental degradation processes and long-term aging effects under combined material exposures.

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Mimicking photosynthesis to make functional nanostructures and nanodevices

Shelnutt, John A.; Song, Yujiang S.; Medforth, Craig J.

Photocatalytic porphyrins are used to reduce metal complexes from aqueous solution and, further, to control the deposition of metals onto porphyrin nanotubes and surfactant assembly templates to produce metal composite nanostructures and nanodevices. For example, surfactant templates lead to spherical platinum dendrites and foam-like nanomaterials composed of dendritic platinum nanosheets. Porphyrin nanotubes are reported for the first time, and photocatalytic porphyrin nanotubes are shown to reduce metal complexes and deposit the metal selectively onto the inner or outer surface of the tubes, leading to nanotube-metal composite structures that are capable of hydrogen evolution and other nanodevices.

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Development of models and online diagnostic monitors of the high-temperature corrosion of refractories in oxy/fuel glass furnaces : final project report

Allendorf, Mark D.

This report summarizes the results of a five-year effort to understand the mechanisms and develop models that predict the corrosion of refractories in oxygen-fuel glass-melting furnaces. Thermodynamic data for the Si-O-(Na or K) and Al-O-(Na or K) systems are reported, allowing equilibrium calculations to be performed to evaluate corrosion of silica- and alumina-based refractories under typical furnace operating conditions. A detailed analysis of processes contributing to corrosion is also presented. Using this analysis, a model of the corrosion process was developed and used to predict corrosion rates in an actual industrial glass furnace. The rate-limiting process is most likely the transport of NaOH(gas) through the mass-transport boundary layer from the furnace atmosphere to the crown surface. Corrosion rates predicted on this basis are in better agreement with observation than those produced by any other mechanism, although the absolute values are highly sensitive to the crown temperature and the NaOH(gas) concentration at equilibrium and at the edge of the boundary layer. Finally, the project explored the development of excimer laser induced fragmentation (ELIF) fluorescence spectroscopy for the detection of gas-phase alkali hydroxides (e.g., NaOH) that are predicted to be the key species causing accelerated corrosion in these furnaces. The development of ELIF and the construction of field-portable instrumentation for glass furnace applications are reported and the method is shown to be effective in industrial settings.

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A general solution for space-charge limiting in one dimension

Proposed for publication in Journal of Applied Physics.

Computation of space-charge current-limiting effects across a vacuum cavity between parallel electrodes has previously been carried out only for thermionic emission spectra. In some applications, where the current arises from an injected electron beam or photo-Compton emission from electrode walls, the electron energy spectra may deviate significantly from Maxwellian. Considering the space charge as a collisionless plasma, we derive an implicit equation for the peak cavity potential assuming steady-state currents. For the examples of graphite, nickel, and gold electrodes exposed to x rays, we find that cavity photoemission currents are typically more severely space-charge limited than they would be with the assumption of a purely Maxwellian energy distribution.

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NetState : a network version tracking system

Durgin, Nancy A.; Vanrandwyk, Jamie V.

Network administrators and security analysts often do not know what network services are being run in every corner of their networks. If they do have a vague grasp of the services running on their networks, they often do not know what specific versions of those services are running. Actively scanning for services and versions does not always yield complete results, and patch and service management, therefore, suffer. We present Net-State, a system for monitoring, storing, and reporting application and operating system version information for a network. NetState gives security and network administrators the ability to know what is running on their networks while allowing for user-managed machines and complex host configurations. Our architecture uses distributed modules to collect network information and a centralized server that stores and issues reports on that collected version information. We discuss some of the challenges to building and operating NetState as well as the legal issues surrounding the promiscuous capture of network data. We conclude that this tool can solve some key problems in network management and has a wide range of possibilities for future uses.

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Knowledge Discovery and Data Mining (KDDM) survey report

Chapman, Leon D.; Homan, Rossitza H.; Bauer, Travis L.; Phillips, Laurence R.; Spires, Shannon V.; Jordan, Danyelle N.

The large number of government and industry activities supporting the Unit of Action (UA), with attendant documents, reports and briefings, can overwhelm decision-makers with an overabundance of information that hampers the ability to make quick decisions often resulting in a form of gridlock. In particular, the large and rapidly increasing amounts of data and data formats stored on UA Advanced Collaborative Environment (ACE) servers has led to the realization that it has become impractical and even impossible to perform manual analysis leading to timely decisions. UA Program Management (PM UA) has recognized the need to implement a Decision Support System (DSS) on UA ACE. The objective of this document is to research the commercial Knowledge Discovery and Data Mining (KDDM) market and publish the results in a survey. Furthermore, a ranking mechanism based on UA ACE-specific criteria has been developed and applied to a representative set of commercially available KDDM solutions. In addition, an overview of four R&D areas identified as critical to the implementation of DSS on ACE is provided. Finally, a comprehensive database containing detailed information on surveyed KDDM tools has been developed and is available upon customer request.

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Effect of porosity on ductility variation in investment cast 17-4PH

Susan, D.F.; Crenshaw, Thomas B.; Grant, Richard P.; Kilgo, Alice C.; Wright, Robert D.

The stainless steel alloy 17-4PH contains a martensitic microstructure and second phase delta ({delta}) ferrite. Strengthening of 17-4PH is attributed to Cu-rich precipitates produced during age hardening treatments at 900-1150 F (H900-H1150). For wrought 17-4PH, the effects of heat treatment and microstructure on mechanical properties are well-documented [for example, Ref. 1]. Fewer studies are available on cast 17-4PH, although it has been a popular casting alloy for high strength applications where moderate corrosion resistance is needed. Microstructural features and defects particular to castings may have adverse effects on properties, especially when the alloy is heat treated to high strength. The objective of this work was to outline the effects of microstructural features specific to castings, such as shrinkage/solidification porosity, on the mechanical behavior of investment cast 17-4PH. Besides heat treatment effects, the results of metallography and SEM studies showed that the largest effect on mechanical properties is from shrinkage/solidification porosity. Figure 1a shows stress-strain curves obtained from samples machined from castings in the H925 condition. The strength levels were fairly similar but the ductility varied significantly. Figure 1b shows an example of porosity on a fracture surface from a room-temperature, quasi-static tensile test. The rounded features represent the surfaces of dendrites which did not fuse or only partially fused together during solidification. Some evidence of local areas of fracture is found on some dendrite surfaces. The shrinkage pores are due to inadequate backfilling of liquid metal and simultaneous solidification shrinkage during casting. A summary of percent elongation results is displayed in Figure 2a. It was found that higher amounts of porosity generally result in lower ductility. Note that the porosity content was measured on the fracture surfaces. The results are qualitatively similar to those found by Gokhale et al. and Surappa et al. in cast A356 Al and by Gokhale et al. for a cast Mg alloys. The quantitative fractography and metallography work by Gokhale et al. illustrated the strong preference for fracture in regions of porosity in cast material. That is, the fracture process is not correlated to the average microstructure in the material but is related to the extremes in microstructure (local regions of high void content). In the present study, image analysis on random cross-sections of several heats indicated an overall porosity content of 0.03%. In contrast, the area % porosity was as high as 16% when measured on fracture surfaces of tensile specimens using stereology techniques. The results confirm that the fracture properties of cast 17-4PH cannot be predicted based on the overall 'average' porosity content in the castings.

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FDTD simulation tools for UWB antenna analysis

Proposed for publication in IEEE Antennas and Wireless Propagation Letters.

Brocato, Robert W.

This paper describes the development of a set of software tools useful for analyzing ultra-wideband (UWB) antennas and structures. These tools are used to perform finite difference time domain (FDTD) simulation of a conical antenna with continuous wave (CW) and UWB pulsed excitations. The antenna is analyzed using spherical coordinate-based FDTD equations that are derived from first principles. The simulation results for CW excitation are compared to simulation and measured results from published sources; the results for UWB excitation are new.

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Verification and Validation of RADTRAN 5.5

Weiner, Ruth F.; Mills, G.S.

This document contains a description of the verification and validation process used for the RADTRAN 5.5 code. The verification and validation process ensured the proper calculational models and mathematical and numerical methods were used in the RADTRAN 5.5 code for the determination of risk and consequence assessments. The differences between RADTRAN 5 and RADTRAN 5.5 are the addition of tables, an expanded isotope library, and the additional User-Defined meteorological option for accident dispersion. 3

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Interlaboratory comparison at 10 V DC

IEEE Transactions on Instrumentation and Measurement

Hamilton, Clark A.; Kupferman, Stuart L.; Salazar, Melquiades T.; Deaver, David; Wood, Barry M.

An interlaboratory comparison at 10 V dc has been made among 16 national, industrial, and military standards laboratories in North America. The comparison used a set of four traveling Zener de reference standards. A pivot laboratory made measurements at the beginning, at the end, and at four other times during the comparison. The measured differences and their uncertainties are reported and used to demonstrate equivalence between each participant and the pivot, and between each participant and the National Institute of Standards and Technology (NIST). All of the differences fall within two parts in 108. © 2005 IEEE.

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Validation of a computational implementation of the Grady-Kipp dynamic fragmentation theory for thin metal plate impacts using an analytical strain-rate model and hydrodynamic analogues

Mechanics of Materials

DeChant, Lawrence J.

Here the analytical plate penetration relationship derived by De Chant [An explanation for the minimal effect of body curvature on hypervelocity penetration hole formation. Sandia National Laboratories, Albuquerque, NM, no. SAND2003-2696J. To appear in: International Journal of Solids and Structures] using an analogy between hydrodynamics and penetration processes is combined with the Grady-Kipp dynamic fragmentation model [International Journal of Impact Engineering 14 (1993) 427; Fragmentation of solids under dynamic loading. In: Wierzbicki, T., Jones, N. (Eds.), Structural Failure. Wiley, New York, 1989; Mechanisms of dynamic fragmentation: factors governing growth size, SAND84-2304C, Sandia National Laboratories, Albuquerque, NM, 1984] to estimate the size and distribution of fragments generated due to impact and penetration of thin plates by spherical projectiles. Fragment statistics estimated using this analytical model are then compared to fragmentation as predicted by CTH, a shock-physics hydrocode [International Journal of Impact Engineering 10 (1990) 351]. Agreement between analytically based model and CTH simulations shows good agreement. Extending the hydrodynamic based analogy used to develop the analytical plate penetration model to include fragmentation processes, we derive expressions relation fragmentation to plate impact and penetration. The functional form of these equations is also in good agreement with CTH simulation. Finally, a deterministic (as opposed to statistical) cumulative particle size distribution relationship is derived using mass conservation concepts and gives a power law distribution. The power law distribution requires the presence of a non-zero minimum fragment size rather than a continuous distribution that includes particles approaching zero size. The presence of a non-zero fragment size is in agreement with computational models and theoretically based cumulative lognormal fragment distributions. © 2004 Elsevier Ltd. All rights reserved.

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Helium nano-bubble evolution in aging metal tritides

Fusion Science and Technology

Cowgill, D.F.

A continuum-scale, evolutionary model of bubble nucleation, growth and He release for aging metal tritides is described which accounts for major features of the tritide database. Bubble nucleation, modeled as self-trapping of interstitially diffusing He atoms, occurs during the first few days following tritium introduction into the metal. Bubble growth by dislocation loop punching yields good agreement between He atomic volumes and bubble pressures determined from bulk swelling and 3He NMR data. The bubble spacing distribution determined from NMR is shown to remain fixed with age, justifying the separation of nucleation and growth phases and providing a sensitive test of the growth formulation. Late in life, bubble interactions are proposed to produce cooperative stress effects, which lower the bubble pressure. Helium generated near surfaces and surface-connected porosity accounts for the low-level early helium release. Use of an average ligament stress criterion predicts an onset of inter-bubble fracture in good agreement with the He/Metal ratio observed for rapid He release. From the model, it is concluded that He retention can be controlled through control of bubble nucleation.

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A fast multi-modal approach to facial feature detection

Proceedings - Seventh IEEE Workshop on Applications of Computer Vision, WACV 2005

Boehnen, Chris; Russ, Trina D.

As interest in 3D face recognition increases the importance of the initial alignment problem does as well. In this paper we present a method utilizing the registered 2D color and range image of a face to automatically identify the eyes, nose, and mouth. These features are important to initially align faces in both standard 2D and 3D face recognition algorithms. For our algorithm to run as fast as possible, we focus on the 2D color information. This allows the algorithm to run in approximately 4 seconds on a 640X480 image with registered range data. On a database of 1,500 images the algorithm achieved a facial feature detection rate of 99.6% with 0.4% of the images skipped due to hair obstruction of the face.

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Helium nano-bubble evolution in aging metal tritides

Fusion Science and Technology

Cowgill, D.F.

A continuum-scale, evolutionary model of bubble nucleation, growth and He release for aging metal tritides is described which accounts for major features of the tritide database. Bubble nucleation, modeled as self-trapping of interstitially diffusing He atoms, occurs during the first few days following tritium introduction into the metal. Bubble growth by dislocation loop punching yields good agreement between He atomic volumes and bubble pressures determined from bulk swelling and 3He NMR data. The bubble spacing distribution determined from NMR is shown to remain fixed with age, justifying the separation of nucleation and growth phases and providing a sensitive test of the growth formulation. Late in life, bubble interactions are proposed to produce cooperative stress effects, which lower the bubble pressure. Helium generated near surfaces and surface-connected porosity accounts for the low-level early helium release. Use of an average ligament stress criterion predicts an onset of inter-bubble fracture in good agreement with the He/Metal ratio observed for rapid He release. From the model, it is concluded that He retention can be controlled through control of bubble nucleation.

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The efficiency of electrokinetic pumping at a condition of maximum work

Electrophoresis

Griffiths, Stewart K.; Nilson, Robert H.

Numerical methods are employed to examine the work, electric power input, and efficiency of electrokinetic pumps at a condition corresponding to maximum pump work. These analyses employ the full Poisson-Boltzmann equations and account for both convective and conductive electric currents, including surface conductance. We find that efficiencies at this condition of maximum work depend on three dimensionless parameters, the normalized zeta potential, normalized Debye layer thickness, and a fluid property termed the Levine number indicating the nominal ratio of convective to conductive electric currents. Efficiencies at maximum work exhibit a maximum for an optimum Debye layer thickness when the zeta potential and Levine number are fixed. This maximum efficiency increases with the square of the zeta potential when the zeta potential is small, but reaches a plateau as the zeta potential becomes large. The maximum efficiency in this latter regime is thus independent of the zeta potential and depends only on the Levine number. Simple analytical expressions describing this maximum efficiency in terms of the Levine number are provided. Geometries of a circular tube and planar channel are examined. © 2005 Wiley-VCH Verlag GmbH & Co. KGaA, Weinheim.

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Progress toward development of an ife power plant using Z-Pinch technology

Fusion Science and Technology

Rochau, Gary E.

The Z-Pinch Power Plant uses the results from Sandia National Laboratories' Z accelerator in a power plant application to generate energy pulses using inertial confinement fusion. A collaborative project has been initiated by Sandia to investigate the scientific principles of a power generation system using this technology. Research is under way to develop an integrated concept that describes the operational issues of a 1000 MW electrical power plant. Issues under consideration include: 1-20 gigajoule fusion pulse containment, repetitive mechanical connection of heavy hardware, generation of terawatt pulses every 10 seconds, recycling often thousand tons of steel, and manufacturing of millions of hohlraums and capsules per year. Additionally, waste generation and disposal issues are being examined. This paper describes the current concept for the plant and also the objectives for future research.

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An algorithm for pre- and post-irradiation fade in the thermo 8802 LiF:Mg,Ti thermoluminescent dosimeter

Health Physics

Hill, Carolyn D.

The diminished response of thermoluminescent phosphors over time is a well-documented challenge to thermoluminescent dosimetry. Wide ranges in fading rates for various phosphor types have been reported, making it necessary for many external dosimetry programs to perform individual studies on thermoluminescent fade. Sandia National Laboratories currently uses the Thermo 8802 LiF:Mg,Ti thermoluminescent dosimeter (TLD) in its personnel external dosimetry program. Doses received in the field are calculated by applying a fade algorithm published by the manufacturer to TLD readings. Since the algorithm was established by characterizing the diminished response of a TLD similar to the 8802, Sandia chose to model its fade study after the analysis done by Thermo. As a result, the parameters of each experiment were comparable, and data from the two studies were compared to determine whether or not the current algorithm should be modified specifically for use at Sandia. Cards were irradiated using an internal 90Sr/90Y source, and pre- and post-irradiation fading rates were monitored over a period of 18 wk. While significant fading was demonstrated, results closely matched those found in the original Thermo study.

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Measurement of the melting point temperature of several lithium-sodium-beryllium fluoride salt (Flinabe) mixtures

Fusion Science and Technology

McDonald, J.M.; Nygren, R.E.; Lutz, T.J.; Tanaka, T.J.; Ulrickson, M.A.; Boyle, T.J.; Troncosa, K.P.

The molten salt Flibe, a combination of lithium and beryllium fluorides studied for molten salt fission reactors, has been proposed as a breeder and coolant for fusion applications. The melting points of 2LiF-BeF2 and LiF-BeF2 are 460°C and 363°C, but LiF-BeF2 is rather viscous and has less lithium for breeding. In the Advanced Power Extraction (APEX) Program, concepts with a free flowing liquid for the first wall and blanket were investigated. Flinabe (a mixture of LiF, BeF2 and NaF) was selected for a molten salt design because a melting temperature below 350°C appeared possible and this provided an attractive operating temperature window for a reactor. To confirm that a ternary salt with a low melting temperature existed, several combinations of the fluoride salts, LiF, NaF and BeF2, were melted in a stainless steel crucible under vacuum. One had an apparent melting temperature of 305°C. The test system, preparation of the mixtures, melting procedures and temperature curves for the melting and cooling are presented along with the apparent melting points. Thermal modeling of the salt pool and crucible is reported in an accompanying paper.

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Measurements of the influence of soot radiation on in-cylinder temperatures and exhaust NOx in a heavy-duty di diesel engine

SAE Technical Papers

Musculus, Mark P.

It is generally accepted that thermal (Zeldo'vich) chemical kinetics dominate NO formation in diesel engines, so control of temperature is critical for reducing exhaust NOx emissions. Recent optical engine data revealed that when the start of injection (SOI) was retarded to very late timings, combustion luminosity decreased while exhaust NOx emissions increased, causing a "NOx bump." This data suggested that changes in radiative heat transfer from soot may affect in-cylinder temperatures and subsequent NOx formation. In this study, soot thermometry measurements of in-cylinder temperature and radiative heat transfer were correlated with exhaust NOx to quantify the role of radiative heat transfer on in-cylinder temperatures and NOx formation. The engine was operated at low-load conditions, for which the premixed burn was a significant fraction of the total heat release. Soot thermometry showed that radiative cooling reduced flame temperatures by 25-50 K for early SOI, reducing exhaust NOx by 12-25%. Near the NOx bump, radiative cooling was essentially absent, and the NOx reduction was thus removed. Radiative cooling alone, however, was found to be insufficient to be solely responsible for the observed changes in NOx emissions. Thermodynamic analysis showed that in the slow-mixing limit, compression-heating of burned gases for the large premixed-burn conditions near the NOx bump can also increase temperatures by about 25 K, for a further 12% increase in NOx. The data also shows that these two factors can contribute to other exhaust NO observations, such as the intake temperature optimum for minimizing NOx emissions. Finally, although it was not directly measured, the rate of post-flame mixing was identified and examined as a third primary factor affecting in-cylinder temperatures and NOx formation in diesel engines.Copyright © 2005 SAE International.

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External Second Gate-Fourier Transform Ion Mobility Spectrometry

Tarver, Edward E.

Ion mobility spectrometry (IMS) is recognized as one of the most sensitive and versatile techniques for the detection of trace levels of organic vapors. IMS is widely used for detecting contraband narcotics, explosives, toxic industrial compounds and chemical warfare agents. Increasing threat of terrorist attacks, the proliferation of narcotics, Chemical Weapons Convention treaty verification as well as humanitarian de-mining efforts has mandated that equal importance be placed on the analysis time as well as the quality of the analytical data. (1) IMS is unrivaled when both speed of response and sensitivity has to be considered. (2) With conventional (signal averaging) IMS systems the number of available ions contributing to the measured signal to less than 1%. Furthermore, the signal averaging process incorporates scan-to-scan variations decreasing resolution. With external second gate Fourier Transform ion mobility spectrometry (FT-IMS), the entrance gate frequency is variable and can be altered in conjunction with other data acquisition parameters to increase the spectral resolution. The FT-IMS entrance gate operates with a 50% duty cycle and so affords a 7 to 10-fold increase in sensitivity. Recent data on high explosives are presented to demonstrate the parametric optimization in sensitivity and resolution of our system.

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Evolutionary complexity for protection of critical assets

Chandross, M.; Battaile, Corbett C.

This report summarizes the work performed as part of a one-year LDRD project, 'Evolutionary Complexity for Protection of Critical Assets.' A brief introduction is given to the topics of genetic algorithms and genetic programming, followed by a discussion of relevant results obtained during the project's research, and finally the conclusions drawn from those results. The focus is on using genetic programming to evolve solutions for relatively simple algebraic equations as a prototype application for evolving complexity in computer codes. The results were obtained using the lil-gp genetic program, a C code for evolving solutions to user-defined problems and functions. These results suggest that genetic programs are not well-suited to evolving complexity for critical asset protection because they cannot efficiently evolve solutions to complex problems, and introduce unacceptable performance penalties into solutions for simple ones.

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Sandia National Laboratories corporate mentor program : program review, May 2004

Stephens, James R.; Dudeck, William D.; Bristol, Colette B.; Tarro, Talitha A.; Pegues, Tiffany T.

The Sandia National Laboratories Corporate Mentor Program provides a mechanism for the development and retention of Sandia's people and knowledge. The relationships formed among staff members at different stages in their careers offer benefits to all. These relationships can provide experienced employees with new ideas and insight and give less experienced employees knowledge of Sandia's culture, strategies, and programmatic direction. The program volunteer coordinators are dedicated to the satisfaction of the participants, who come from every area of Sandia. Since its inception in 1995, the program has sustained steady growth and excellent customer satisfaction. This report summarizes the accomplishments, activities, enhancements, and evaluation data for the Corporate Mentor Program for the 2003/2004 program year ending May 1, 2004.

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Genomes to life project quarterly report June 2004

Heffelfinger, Grant S.; Martino, Anthony M.; Rintoul, Mark D.

This SAND report provides the technical progress through June 2004 of the Sandia-led project, ''Carbon Sequestration in Synechococcus Sp.: From Molecular Machines to Hierarchical Modeling'', funded by the DOE Office of Science Genomes to Life Program. Understanding, predicting, and perhaps manipulating carbon fixation in the oceans has long been a major focus of biological oceanography and has more recently been of interest to a broader audience of scientists and policy makers. It is clear that the oceanic sinks and sources of CO{sub 2} are important terms in the global environmental response to anthropogenic atmospheric inputs of CO{sub 2} and that oceanic microorganisms play a key role in this response. However, the relationship between this global phenomenon and the biochemical mechanisms of carbon fixation in these microorganisms is poorly understood. In this project, we will investigate the carbon sequestration behavior of Synechococcus Sp., an abundant marine cyanobacteria known to be important to environmental responses to carbon dioxide levels, through experimental and computational methods. This project is a combined experimental and computational effort with emphasis on developing and applying new computational tools and methods. Our experimental effort will provide the biology and data to drive the computational efforts and include significant investment in developing new experimental methods for uncovering protein partners, characterizing protein complexes, identifying new binding domains. We will also develop and apply new data measurement and statistical methods for analyzing microarray experiments. Computational tools will be essential to our efforts to discover and characterize the function of the molecular machines of Synechococcus. To this end, molecular simulation methods will be coupled with knowledge discovery from diverse biological data sets for high-throughput discovery and characterization of protein-protein complexes. In addition, we will develop a set of novel capabilities for inference of regulatory pathways in microbial genomes across multiple sources of information through the integration of computational and experimental technologies. These capabilities will be applied to Synechococcus regulatory pathways to characterize their interaction map and identify component proteins in these pathways. We will also investigate methods for combining experimental and computational results with visualization and natural language tools to accelerate discovery of regulatory pathways. The ultimate goal of this effort is develop and apply new experimental and computational methods needed to generate a new level of understanding of how the Synechococcus genome affects carbon fixation at the global scale. Anticipated experimental and computational methods will provide ever-increasing insight about the individual elements and steps in the carbon fixation process, however relating an organism's genome to its cellular response in the presence of varying environments will require systems biology approaches. Thus a primary goal for this effort is to integrate the genomic data generated from experiments and lower level simulations with data from the existing body of literature into a whole cell model. We plan to accomplish this by developing and applying a set of tools for capturing the carbon fixation behavior of complex of Synechococcus at different levels of resolution. Finally, the explosion of data being produced by high-throughput experiments requires data analysis and models which are more computationally complex, more heterogeneous, and require coupling to ever increasing amounts of experimentally obtained data in varying formats. These challenges are unprecedented in high performance scientific computing and necessitate the development of a companion computational infrastructure to support this effort.

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A user's guide to radiation transport in ALEGRA-HEDP : version 4.6

Mehlhorn, Thomas A.

This manual describes the input syntax to the ALEGRA radiation transport package. All input and output variables are defined, as well as all algorithmic controls. This manual describes the radiation input syntax for ALEGRA-HEDP. The ALEGRA manual[2] describes how to run the code and general input syntax. The ALEGRA-HEDP manual[13] describes the input for other physics used in high energy density physics simulations, as well as the opacity models used by this radiation package. An emission model, which is the lowest order radiation transport approximation, is also described in the ALEGRA-HEDP manual. This document is meant to be used with these other manuals.

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Optimization of PDC drill bit performance utilizing high-speed, real-time downhole data acquired under a cooperative research and development agreement

SPE/IADC Drilling Conference, Proceedings

Roberts, T.S.; Schen, A.E.; Wise, Jack L.

PDC drill bit performance has been greatly improved over the past three decades by innovations in bit design and how these designs are applied. The next leap forward is most likely to come from using high-speed, real-time downhole data to optimize the performance of these sophisticated bits on an application-by-application basis. By effectively managing conditions of lateral, axial and torsional acceleration, damage to cutting structures can be minimized for improved penetration rates. Avoiding these damaging vibrations is essential to increasing bit durability and improving overall drilling economics. This paper describes one set of independent drilling optimization results obtained as part of a series of controlled demonstrations of PDC bits. Sandia National Laboratories on behalf of the U. S. Department of Energy (DOE) managed this work. The effort was organized as a Cooperative Research and Development Agreement (CRADA) established between Sandia and four bit manufacturers with DOE funding and in-kind contributions by the industry partners. The goal of this CRADA was to demonstrate drag bit performance in formations with degrees of hardness typical of those encountered while drilling geothermal wells. The test results indicate that the surface weight-on-bit (WOB), revolutions per minute (RPM) and torque readings traditionally used to guide adjustments in the drilling parameters do not always provide the true picture of what is really taking place at the bit. Instead, a holistic approach combining traditional methods of optimization together with high-speed, real-time data enables far better decisions for improving bit performance and avoiding damaging situations that may have otherwise gone unnoticed.

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High-power optical parametric chirped-pulse amplifier system with 1.6-μm signal and 1.064-μm pump

Optics InfoBase Conference Papers

Rudd, J.V.; Law, R.J.; Atherton, B.W.; Luk, Ting S.; Cameron, Stewart M.

Optical parametric chirped-pulse amplifiers utilizing a 300-ps Nd:YAG pump system, a tunable 1.6-μm fiber signal, and KNbO3, KTA, RTP, or BBO nonlinear crystals were designed and built. Gain >109, and peak powers >30GW were obtained. © 2005 Optical Society of America.

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Experimental investigation of a cylinder in turbulent thermal convection with an imposed shear flow

43rd AIAA Aerospace Sciences Meeting and Exhibit - Meeting Papers

Kearney, Sean P.; Grasser, Thomas W.; Gayton Liter, S.; Evans, Gregory H.; Greif, Ralph

An experimental investigation is made into the fluid mechanics and heat transfer of a circular cylinder immersed in a wall-bounded turbulent mixed-convection flow of water. The cylinder is oriented spanwise to the forced channel flow and within the thermal boundary layer of the heated lower wall. The flow channel is capped with a cold, near-adiabatic upper wall producing a fully turbulent gap Rayleigh number of 108. A low-speed crossflow is applied to advect the turbulent thermal plumes over the cylinder surface. We present spatially resolved cylinder-surface heat-flux data alongside 2-D PIV imaging of the streamwise and wall-normal velocity components for two flow conditions in the mixed-convection heat-transfer regime. The measured cylinder-wake flowfield reflects the complex coupling between the separated wake flow, the highly turbulent freestream and the buoyant wall and cylinder boundary layers. A method for measurement of spatially resolved surface heat fluxes based on the measured cylinder-surface temperature distribution and a well-posed two-dimensional solution to the conduction problem in the cylinder wall is presented. The resulting spatially resolved flux measurements show enhanced surface heat transfer, which results from the intense buoyancy generated free-stream turbulence and mixing in the cylinder wake. This work extends the literature on thermal convection with crossflow well into the turbulent regime and is, to our knowledge, the first investigation of surface heat-transfer to an object of engineering importance placed in this type of turbulent mixed-convection flowfield. The data are currently being utilized for validation of mixed-convection turbulence models at Sandia and comparisons between the computational and experimental results are presented.

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Automated visual direction : LDRD 38623 final report

Anderson, Robert J.

Mobile manipulator systems used by emergency response operators consist of an articulated robot arm, a remotely driven base, a collection of cameras, and a remote communications link. Typically the system is completely teleoperated, with the operator using live video feedback to monitor and assess the environment, plan task activities, and to conduct the operations via remote control input devices. The capabilities of these systems are limited, and operators rarely attempt sophisticated operations such as retrieving and utilizing tools, deploying sensors, or building up world models. This project has focused on methods to utilize this video information to enable monitored autonomous behaviors for the mobile manipulator system, with the goal of improving the overall effectiveness of the human/robot system. Work includes visual servoing, visual targeting, utilization of embedded video in 3-D models, and improved methods of camera utilization and calibration.

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Assessment of disinfectants in explosive destruction system for biological agent destruction : LDRD final report FY04

Buffleben, George M.; Crooker, Paul J.; Didlake, John E.; Simmons, Blake S.; Bradshaw, Robert W.

Treatment systems that can neutralize biological agents are needed to mitigate risks from novel and legacy biohazards. Tests with Bacillus thuringiensis and Bacillus steurothemophilus spores were performed in a 190-liter, 1-112 lb TNT equivalent rated Explosive Destruction System (EDS) system to evaluate its capability to treat and destroy biological agents. Five tests were conducted using three different agents to kill the spores. The EDS was operated in steam autoclave, gas fumigation and liquid decontamination modes. The first three tests used EDS as an autoclave, which uses pressurized steam to kill the spores. Autoclaving was performed at 130-140 deg C for up to 2-hours. Tests with chlorine dioxide at 750 ppm concentration for 1 hour and 10% (vol) aqueous chlorine bleach solution for 1 hour were also performed. All tests resulted in complete neutralization of the bacterial spores based on no bacterial growth in post-treatment incubations. Explosively opening a glass container to expose the bacterial spores for treatment with steam was demonstrated and could easily be done for chlorine dioxide gas or liquid bleach.

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Model-building codes for membrane proteins

Brown, William M.; Faulon, Jean-Loup M.; Gray, Genetha A.; Hunt, Thomas W.; Schoeniger, Joseph S.; Slepoy, Alexander S.; Young, Malin M.

We have developed a novel approach to modeling the transmembrane spanning helical bundles of integral membrane proteins using only a sparse set of distance constraints, such as those derived from MS3-D, dipolar-EPR and FRET experiments. Algorithms have been written for searching the conformational space of membrane protein folds matching the set of distance constraints, which provides initial structures for local conformational searches. Local conformation search is achieved by optimizing these candidates against a custom penalty function that incorporates both measures derived from statistical analysis of solved membrane protein structures and distance constraints obtained from experiments. This results in refined helical bundles to which the interhelical loops and amino acid side-chains are added. Using a set of only 27 distance constraints extracted from the literature, our methods successfully recover the structure of dark-adapted rhodopsin to within 3.2 {angstrom} of the crystal structure.

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Quantum squeezed light for probing mitochondrial membranes and study of neuroprotectants

Gourley, Paul L.; Copeland, Robert G.; McDonald, Anthony E.

We report a new nanolaser technique for measuring characteristics of human mitochondria. Because mitochondria are so small, it has been difficult to study large populations using standard light microscope or flow cytometry techniques. We recently discovered a nano-optical transduction method for high-speed analysis of submicron organelles that is well suited to mitochondrial studies. This ultrasensitive detection technique uses nano-squeezing of light into photon modes imposed by the ultrasmall organelle dimensions in a semiconductor biocavity laser. In this paper, we use the method to study the lasing spectra of normal and diseased mitochondria. We find that the diseased mitochondria exhibit larger physical diameter and standard deviation. This morphological differences are also revealed in the lasing spectra. The diseased specimens have a larger spectral linewidth than the normal, and have more variability in their statistical distributions.

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Biomolecular decision-making process for self assembly

Osbourn, Gordon C.

The brain is often identified with decision-making processes in the biological world. In fact, single cells, single macromolecules (proteins) and populations of molecules also make simple decisions. These decision processes are essential to survival and to the biological self-assembly and self-repair processes that we seek to emulate. How do these tiny systems make effective decisions? How do they make decisions in concert with a cooperative network of other molecules or cells? How can we emulate the decision-making behaviors of small-scale biological systems to program and self-assemble microsystems? This LDRD supported research to answer these questions. Our work included modeling and simulation of protein populations to help us understand, mimic, and categorize molecular decision-making mechanisms that nonequilibrium systems can exhibit. This work is an early step towards mimicking such nanoscale and microscale biomolecular decision-making processes in inorganic systems.

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Near net shape forming processes for chemically prepared zinc oxide varistors

Bell, Nelson S.; Lockwood, Steven J.; Voigt, James A.; Tuttle, Bruce T.

Chemically prepared zinc oxide powders are fabricated for the production of high aspect ratio varistor components. Colloidal processing in water was performed to reduce agglomerates to primary particles, form a high solids loading slurry, and prevent dopant migration. The milled and dispersed powder exhibited a viscoelastic to elastic behavioral transition at a volume loading of 43-46%. The origin of this transition was studied using acoustic spectroscopy, zeta potential measurements and oscillatory rheology. The phenomenon occurs due to a volume fraction solids dependent reduction in the zeta potential of the solid phase. It is postulated to result from divalent ion binding within the polyelectrolyte dispersant chain, and was mitigated using a polyethylene glycol plasticizing additive. Chemically prepared zinc oxide powders were processed for the production of high aspect ratio varistor components. Near net shape casting methods including slip casting and agarose gelcasting were evaluated for effectiveness in achieving a uniform green microstructure achieving density values near the theoretical maximum during sintering. The structure of the green parts was examined by mercury porisimetry. Agarose gelcasting produced green parts with low solids loading values and did not achieve high fired density. Isopressing the agarose cast parts after drying raised the fired density to greater than 95%, but the parts exhibited catastrophic shorting during electrical testing. Slip casting produced high green density parts, which exhibited high fired density values. The electrical characteristics of slip cast parts are comparable with dry pressed powder compacts. Alternative methods for near net shape forming of ceramic dispersions were investigated for use with the chemically prepared ZnO material. Recommendations for further investigation to achieve a viable production process are presented.

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ALEGRA : version 4.6

Wong, Michael K.; Brunner, Thomas A.; Garasi, Christopher J.; Haill, Thomas A.; Mehlhorn, Thomas A.; Drake, Richard R.; Hensinger, David M.; Robbins, Joshua R.; Robinson, Allen C.; Summers, Randall M.; Voth, Thomas E.

ALEGRA is an arbitrary Lagrangian-Eulerian multi-material finite element code used for modeling solid dynamics problems involving large distortion and shock propagation. This document describes the basic user input language and instructions for using the software.

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MiniSAR composite gimbal arm development

Klarer, Paul R.

An exploratory effort in the application of carbon epoxy composite structural materials to a multi-axis gimbal arm design is described. An existing design in aluminum was used as a baseline for a functionally equivalent redesigned outer gimbal arm using a carbon epoxy composite material. The existing arm was analyzed using finite element techniques to characterize performance in terms of strength, stiffness, and weight. A new design was virtually prototyped. using the same tools to produce a design with similar stiffness and strength, but reduced overall weight, than the original arm. The new design was prototyped using Rapid Prototyping technology, which was subsequently used to produce molds for fabricating the carbon epoxy composite parts. The design tools, process, and results are discussed.

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Sensitivity technologies for large scale simulation

Bartlett, Roscoe B.; Collis, Samuel S.; Keiter, Eric R.; Ober, Curtis C.; Smith, Thomas M.

Sensitivity analysis is critically important to numerous analysis algorithms, including large scale optimization, uncertainty quantification,reduced order modeling, and error estimation. Our research focused on developing tools, algorithms and standard interfaces to facilitate the implementation of sensitivity type analysis into existing code and equally important, the work was focused on ways to increase the visibility of sensitivity analysis. We attempt to accomplish the first objective through the development of hybrid automatic differentiation tools, standard linear algebra interfaces for numerical algorithms, time domain decomposition algorithms and two level Newton methods. We attempt to accomplish the second goal by presenting the results of several case studies in which direct sensitivities and adjoint methods have been effectively applied, in addition to an investigation of h-p adaptivity using adjoint based a posteriori error estimation. A mathematical overview is provided of direct sensitivities and adjoint methods for both steady state and transient simulations. Two case studies are presented to demonstrate the utility of these methods. A direct sensitivity method is implemented to solve a source inversion problem for steady state internal flows subject to convection diffusion. Real time performance is achieved using novel decomposition into offline and online calculations. Adjoint methods are used to reconstruct initial conditions of a contamination event in an external flow. We demonstrate an adjoint based transient solution. In addition, we investigated time domain decomposition algorithms in an attempt to improve the efficiency of transient simulations. Because derivative calculations are at the root of sensitivity calculations, we have developed hybrid automatic differentiation methods and implemented this approach for shape optimization for gas dynamics using the Euler equations. The hybrid automatic differentiation method was applied to a first order approximation of the Euler equations and used as a preconditioner. In comparison to other methods, the AD preconditioner showed better convergence behavior. Our ultimate target is to perform shape optimization and hp adaptivity using adjoint formulations in the Premo compressible fluid flow simulator. A mathematical formulation for mixed-level simulation algorithms has been developed where different physics interact at potentially different spatial resolutions in a single domain. To minimize the implementation effort, explicit solution methods can be considered, however, implicit methods are preferred if computational efficiency is of high priority. We present the use of a partial elimination nonlinear solver technique to solve these mixed level problems and show how these formulation are closely coupled to intrusive optimization approaches and sensitivity analyses. Production codes are typically not designed for sensitivity analysis or large scale optimization. The implementation of our optimization libraries into multiple production simulation codes in which each code has their own linear algebra interface becomes an intractable problem. In an attempt to streamline this task, we have developed a standard interface between the numerical algorithm (such as optimization) and the underlying linear algebra. These interfaces (TSFCore and TSFCoreNonlin) have been adopted by the Trilinos framework and the goal is to promote the use of these interfaces especially with new developments. Finally, an adjoint based a posteriori error estimator has been developed for discontinuous Galerkin discretization of Poisson's equation. The goal is to investigate other ways to leverage the adjoint calculations and we show how the convergence of the forward problem can be improved by adapting the grid using adjoint-based error estimates. Error estimation is usually conducted with continuous adjoints but if discrete adjoints are available it may be possible to reuse the discrete version for error estimation. We investigate the advantages and disadvantages of continuous and discrete adjoints through a simple example.

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Sandia National Laboratories Advanced Simulation and Computing (ASC) Software Quality Plan. Part 2, Mappings for the ASC software quality engineering practices. Version 1.0

Boucheron, Edward A.; Schofield, Joseph R.; Drake, Richard R.; Minana, Molly A.; Forsythe, Christi A.; Heaphy, Robert T.; Hodges, Ann L.; Pavlakos, Constantine P.; Sturtevant, Judy E.

The purpose of the Sandia National Laboratories Advanced Simulation and Computing (ASC) Software Quality Plan is to clearly identify the practices that are the basis for continually improving the quality of ASC software products. The plan defines the ASC program software quality practices and provides mappings of these practices to Sandia Corporate Requirements CPR 1.3.2 and 1.3.6 and to a Department of Energy document, 'ASCI Software Quality Engineering: Goals, Principles, and Guidelines'. This document also identifies ASC management and software project teams responsibilities in implementing the software quality practices and in assessing progress towards achieving their software quality goals.

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Sandia National Laboratories Advanced Simulation and Computing (ASC) software quality plan. Part 1 : ASC software quality engineering practices version 1.0

Boucheron, Edward A.; Schofield, Joseph R.; Drake, Richard R.; Edwards, Harold C.; Minana, Molly A.; Forsythe, Christi A.; Heaphy, Robert T.; Hodges, Ann L.; Pavlakos, Constantine P.; Sturtevant, Judy E.

The purpose of the Sandia National Laboratories (SNL) Advanced Simulation and Computing (ASC) Software Quality Plan is to clearly identify the practices that are the basis for continually improving the quality of ASC software products. Quality is defined in DOE/AL Quality Criteria (QC-1) as conformance to customer requirements and expectations. This quality plan defines the ASC program software quality practices and provides mappings of these practices to the SNL Corporate Process Requirements (CPR 1.3.2 and CPR 1.3.6) and the Department of Energy (DOE) document, ASCI Software Quality Engineering: Goals, Principles, and Guidelines (GP&G). This quality plan identifies ASC management and software project teams' responsibilities for cost-effective software engineering quality practices. The SNL ASC Software Quality Plan establishes the signatories commitment to improving software products by applying cost-effective software engineering quality practices. This document explains the project teams opportunities for tailoring and implementing the practices; enumerates the practices that compose the development of SNL ASC's software products; and includes a sample assessment checklist that was developed based upon the practices in this document.

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LDRD final report on engineered superconductivity in electron-hole bilayers

Lilly, Michael L.; Bielejec, Edward S.; Seamons, J.A.; Dunn, Roberto G.; Lyo, S.K.; Reno, J.L.; Stephenson, Larry L.; Baca, Wes E.; Simmons, J.A.

Macroscopic quantum states such as superconductors, Bose-Einstein condensates and superfluids are some of the most unusual states in nature. In this project, we proposed to design a semiconductor system with a 2D layer of electrons separated from a 2D layer of holes by a narrow (but high) barrier. Under certain conditions, the electrons would pair with the nearby holes and form excitons. At low temperature, these excitons could condense to a macroscopic quantum state either through a Bose-Einstein condensation (for weak exciton interactions) or a BCS transition to a superconductor (for strong exciton interactions). While the theoretical predictions have been around since the 1960's, experimental realization of electron-hole bilayer systems has been extremely difficult due to technical challenges. We identified four characteristics that if successfully incorporated into a device would give the best chances for excitonic condensation to be observed. These characteristics are closely spaced layers, low disorder, low density, and independent contacts to allow transport measurements. We demonstrated each of these characteristics separately, and then incorporated all of them into a single electron-hole bilayer device. The key to the sample design is using undoped GaAs/AlGaAs heterostructures processed in a field-effect transistor geometry. In such samples, the density of single 2D layers of electrons could be varied from an extremely low value of 2 x 10{sup 9} cm{sup -2} to high values of 3 x 10{sup 11} cm{sup -2}. The extreme low values of density that we achieved in single layer 2D electrons allowed us to make important contributions to the problem of the metal insulator transition in two dimensions, while at the same time provided a critical base for understanding low density 2D systems to be used in the electron-hole bilayer experiments. In this report, we describe the processing advances to fabricate single and double layer undoped samples, the low density results on single layers, and evidence for gateable undoped bilayers.

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Advanced polychromator systems for remote chemical sensing (LDRD project 52575)

Allen, James J.; Sinclair, Michael B.; Pfeifer, Kent B.

The objective of this LDRD project was to develop a programmable diffraction grating fabricated in SUMMiT V{trademark}. Two types of grating elements (vertical and rotational) were designed and demonstrated. The vertical grating element utilized compound leveraged bending and the rotational grating element used vertical comb drive actuation. This work resulted in two technical advances and one patent application. Also a new optical configuration of the Polychromator was demonstrated. The new optical configuration improved the optical efficiency of the system without degrading any other aspect of the system. The new configuration also relaxes some constraint on the programmable diffraction grating.

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Graduated embodiment for sophisticated agent evolution and optimization

Boslough, Mark B.; Peters, Michael D.; Pierson, Arthurine R.

We summarize the results of a project to develop evolutionary computing methods for the design of behaviors of embodied agents in the form of autonomous vehicles. We conceived and implemented a strategy called graduated embodiment. This method allows high-level behavior algorithms to be developed using genetic programming methods in a low-fidelity, disembodied modeling environment for migration to high-fidelity, complex embodied applications. This project applies our methods to the problem domain of robot navigation using adaptive waypoints, which allow navigation behaviors to be ported among autonomous mobile robots with different degrees of embodiment, using incremental adaptation and staged optimization. Our approach to biomimetic behavior engineering is a hybrid of human design and artificial evolution, with the application of evolutionary computing in stages to preserve building blocks and limit search space. The methods and tools developed for this project are directly applicable to other agent-based modeling needs, including climate-related conflict analysis, multiplayer training methods, and market-based hypothesis evaluation.

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Characterization of minority-carrier hole transport in nitride-based light-emitting diodes with optical and electrical time-resolved techniques

Kaplar, Robert K.; Kurtz, S.R.; Koleske, Daniel K.; Allerman, A.A.; Fischer, Arthur J.; Crawford, Mary H.

Forward-to-reverse bias step-recovery measurements were performed on In.07Ga.93N/GaN and Al.36Ga.64N/Al.46Ga.54N quantum-well (QW) light-emitting diodes grown on sapphire. With the QW sampling the minority-carrier hole density at a single position, distinctive two-phase optical decay curves were observed. Using diffusion equation solutions to self-consistently model both the electrical and optical responses, hole transport parameters tp = 758 {+-} 44 ns, Lp = 588 {+-} 45 nm, and up = 0.18 {+-} 0.02 cm2/Vs were obtained for GaN. The mobility was thermally activated with an activation energy of 52 meV, suggesting trap-modulated transport. Optical measurements of sub-bandgap peaks exhibited slow responses approaching the bulk lifetime. For Al.46Ga.54N, a longer lifetime of tp = 3.0 us was observed, and the diffusion length was shorter, Lp = 280 nm. Mobility was an order of magnitude smaller than in GaN, up = 10-2 cm2/Vs, and was insensitive to temperature, suggesting hole transport through a network of defects.

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System of systems modeling and analysis

Campbell, James E.; Anderson, Dennis J.; Shirah, Donald N.

This report documents the results of an LDRD program entitled 'System of Systems Modeling and Analysis' that was conducted during FY 2003 and FY 2004. Systems that themselves consist of multiple systems (referred to here as System of Systems or SoS) introduce a level of complexity to systems performance analysis and optimization that is not readily addressable by existing capabilities. The objective of the 'System of Systems Modeling and Analysis' project was to develop an integrated modeling and simulation environment that addresses the complex SoS modeling and analysis needs. The approach to meeting this objective involved two key efforts. First, a static analysis approach, called state modeling, has been developed that is useful for analyzing the average performance of systems over defined use conditions. The state modeling capability supports analysis and optimization of multiple systems and multiple performance measures or measures of effectiveness. The second effort involves time simulation which represents every system in the simulation using an encapsulated state model (State Model Object or SMO). The time simulation can analyze any number of systems including cross-platform dependencies and a detailed treatment of the logistics required to support the systems in a defined mission.

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Self-heating study of an AlGaN/GaN-based heterostructure field effect transistor using ultraviolet micro-Raman scattering

Proposed for publication in Applied Physics Letters.

Kurtz, S.R.; Tigges, Chris P.; Allerman, A.A.; Baca, A.G.

We report micro-Raman studies of self-heating in an AlGaN/GaN heterostructure field-effect transistor using below (visible 488.0 nm) and near (UV 363.8 nm) GaN band-gap excitation. The shallow penetration depth of the UV light allows us to measure temperature rise ({Delta}T) in the two-dimensional electron gas (2DEG) region of the device between drain and source. Visible light gives the average {Delta}T in the GaN layer, and that of the SiC substrate, at the same lateral position. Combined, we depth profile the self-heating. Measured {Delta}T in the 2DEG is consistently over twice the average GaN-layer value. Electrical and thermal transport properties are simulated. We identify a hotspot, located at the gate edge in the 2DEG, as the prevailing factor in the self-heating.

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Simultaneous time and frequency resolved fluorescence microscopy of single molecules

Luong, A K.; Gradinaru, Claudiu C.; Chandler, D.W.; Hayden, Carl C.

Single molecule fluorophores were studied for the first time with a new confocal fluorescence microscope that allows the wavelength and emission time to be simultaneously measured with single molecule sensitivity. In this apparatus, the photons collected from the sample are imaged through a dispersive optical system onto a time and position sensitive detector. This detector records the wavelength and emission time of each detected photon relative to an excitation laser pulse. A histogram of many events for any selected spatial region or time interval can generate a full fluorescence spectrum and correlated decay plot for the given selection. At the single molecule level, this approach makes entirely new types of temporal and spectral correlation spectroscopy of possible. This report presents the results of simultaneous time- and frequency-resolved fluorescence measurements of single rhodamine 6G (R6G), tetramethylrhodamine (TMR), and Cy3 embedded in thin films of polymethylmethacrylate (PMMA).

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A manufactured solution for verifying CFD boundary conditions: part II

Knupp, Patrick K.; Ober, Curtis C.

Order-of-accuracy verification is necessary to ensure that software correctly solves a given set of equations. One method to verify the order of accuracy of a code is the method of manufactured solutions. In this study, a manufactured solution has been derived and implemented that allows verification of not only the Euler, Navier-Stokes, and Reynolds-Averaged Navier-Stokes (RANS) equation sets, but also some of their associated boundary conditions (BC's): slip, no-slip (adiabatic and isothermal), and outflow (subsonic, supersonic, and mixed). Order-of-accuracy verification has been performed for the Euler and Navier-Stokes equations and these BC's in a compressible computational fluid dynamics code. All of the results shown are on skewed, non-uniform meshes. RANS results will be presented in a future paper. The observed order of accuracy was lower than the expected order of accuracy in two cases. One of these cases resulted in the identification and correction of a coding mistake in the CHAD gradient correction that was reducing the observed order of accuracy. This mistake would have been undetectable on a Cartesian mesh. During the search for the CHAD gradient correction problem, an unrelated coding mistake was found and corrected. The other case in which the observed order of accuracy was less than expected was a test of the slip BC; although no specific coding or formulation mistakes have yet been identified. After the correction of the identified coding mistakes, all of the aforementioned equation sets and BC's demonstrated the expected (or at least acceptable) order of accuracy except the slip condition.

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Channel specific rate constants relevant to the thermal decomposition of disilane

Proposed for publication in J. Phys. Chem. A.

Klippenstein, Stephen J.

Rate constants for the thermal dissociation of Si{sub 2}H{sub 6} are predicted with a novel transition state model. The saddle points for dissociation on the Si{sub 2}H{sub 6} potential energy surface are lower in energy than the corresponding separated products, as confirmed by high level ab initio quantum mechanical calculations. Thus, the dissociations of Si{sub 2}H{sub 6} to produce SiH{sub 2} + SiH{sub 4} (R1) and H{sub 3}SiSiH + H{sub 2} (R2) both proceed through tight inner transition states followed by loose outer transition states. The present 'dual' transition state model couples variational phase space theory treatments of the outer transition states with ab initio based fixed harmonic vibrator treatments of the inner transition states to obtain effective numbers of states for the two transition states acting in series. It is found that, at least near room temperature, such a dual transition state model is generally required for the proper description of each of the dissociations. Only at quite high temperatures, i.e., above 2000 K for (R1) and 600 K for (R2), does a single fixed inner transition state provide an adequate description. Similarly, only at quite low temperatures (below 100 and 10 K for (R1) and (R2), respectively) does a single outer transition state provide an adequate description. Pressure dependent rate constants are obtained from solutions to the multichannel master equation. These calculations confirm that dissociation channel (R2) is negligible under conditions relevant to the thermal chemical vapor deposition (CVD) processes. Rate constants for the chemical activation reactions, SiH{sub 2} + SiH{sub 4} {yields} Si{sub 2}H{sub 6} (R-1) and SiH{sub 2} + SiH{sub 4} {yields} H{sub 3}SiSiH + H{sub 2} (R3), are also evaluated within the dual transition state model. It is found that reaction R3 is the dominant channel for low pressures and high temperatures, i.e., below 100 Torr for temperatures above 1100 K.

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Si-based RF MEMS components

Dyck, Christopher D.; Stewart, Harold D.; Fleming, J.G.; Stevens, James E.; Baker, Michael S.; Nordquist, Christopher N.

Radio frequency microelectromechanical systems (RF MEMS) are an enabling technology for next-generation communications and radar systems in both military and commercial sectors. RF MEMS-based reconfigurable circuits outperform solid-state circuits in terms of insertion loss, linearity, and static power consumption and are advantageous in applications where high signal power and nanosecond switching speeds are not required. We have demonstrated a number of RF MEMS switches on high-resistivity silicon (high-R Si) that were fabricated by leveraging the volume manufacturing processes available in the Microelectronics Development Laboratory (MDL), a Class-1, radiation-hardened CMOS manufacturing facility. We describe novel tungsten and aluminum-based processes, and present results of switches developed in each of these processes. Series and shunt ohmic switches and shunt capacitive switches were successfully demonstrated. The implications of fabricating on high-R Si and suggested future directions for developing low-loss RF MEMS-based circuits are also discussed.

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Preconditioning of elliptic saddle point systems by substructuring and a penalty approach

Dohrmann, Clark R.

The focus of this paper is a penalty-based strategy for preconditioning elliptic saddle point systems. As the starting point, we consider the regularization approach of Axelsson in which a related linear system, differing only in the (2,2) block of the coefficient matrix, is introduced. By choosing this block to be negative definite, the dual unknowns of the related system can be eliminated resulting in a positive definite primal Schur complement. Rather than solving the Schur complement system exactly, an approximate solution is obtained using a substructuring preconditioner. The approximate primal solution together with the recovered dual solution then define the preconditioned residual for the original system. The approach can be applied to a variety of different saddle point problems. Although the preconditioner itself is symmetric and indefinite, all the eigenvalues of the preconditioned system are real and positive if certain conditions hold. Stronger conditions also ensure that the eigenvalues are bounded independently of mesh parameters. An interesting feature of the approach is that conjugate gradients can be used as the iterative solution method rather than GMRES. The effectiveness of the overall strategy hinges on the preconditioner for the primal Schur complement. Interestingly, the primary condition ensuring real and positive eigenvalues is satisfied automatically in certain instances if a Balancing Domain Decomposition by Constraints (BDDC) preconditioner is used. Following an overview of BDDC, we show how its constraints can be chosen to ensure insensitivity to parameter choices in the (2,2) block for problems with a divergence constraint. Examples for different saddle point problems are presented and comparisons made with other approaches.

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Modeling local chemistry in the presence of collective phenomena

Chandross, M.

Confinement within the nanoscale pores of a zeolite strongly modifies the behavior of small molecules. Typical of many such interesting and important problems, realistic modeling of this phenomena requires simultaneously capturing the detailed behavior of chemical bonds and the possibility of collective dynamics occurring in a complex unit cell (672 atoms in the case of Zeolite-4A). Classical simulations alone cannot reliably model the breaking and formation of chemical bonds, while quantum methods alone are incapable of treating the extended length and time scales characteristic of complex dynamics. We have developed a robust and efficient model in which a small region treated with the Kohn-Sham density functional theory is embedded within a larger system represented with classical potentials. This model has been applied in concert with first-principles electronic structure calculations and classical molecular dynamics and Monte Carlo simulations to study the behavior of water, ammonia, the hydroxide ion, and the ammonium ion in Zeolite-4a. Understanding this behavior is important to the predictive modeling of the aging of Zeolite-based desiccants. In particular, we have studied the absorption of these molecules, interactions between water and the ammonium ion, and reactions between the hydroxide ion and the zeolite cage. We have shown that interactions with the extended Zeolite cage strongly modifies these local chemical phenomena, and thereby we have proven out hypothesis that capturing both local chemistry and collective phenomena is essential to realistic modeling of this system. Based on our results, we have been able to identify two possible mechanisms for the aging of Zeolite-based desiccants.

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Characterizing the effects of scale and heating rate on micro-scale explosive ignition criteria

Hafenrichter, Everett H.; Pahl, Robert J.

Laser diode ignition experiments were conducted in an effort to characterize the effects of scale and heating rate on micro-scale explosive ignition criteria. Over forty experiments were conducted with various laser power densities and laser spot sizes. In addition, relatively simple analytical and numerical calculations were performed to assist with interpretation of the experimental data and characterization of the explosive ignition criteria.

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Results 85401–85500 of 96,771
Results 85401–85500 of 96,771