We present a summary on ongoing simulation results for the electron-cloud (EC) buildup in the context of the proposed FNAL Main Injector (MI) intensity upgrade effort [1]. Most of the results presented here are for the field-free region at the location of the retarding field analyzer (RFA) electron detector [2-4]. The primary input variable we exercise is the peak secondary electron yield (SEY) {delta}{sub max}, which we let vary in the range 1.2 {le} {delta}{sub max} {le} 1.7. By combining our simulated results for the electron flux at the vacuum chamber wall with the corresponding RFA measurements we infer that 1.25 {approx}< {delta}{sub max} {approx}< 1.35 at this location. From this piece of information we estimate features of the EC distribution for various fill patterns, including the average electron number density n{sub e}. We then compare the behavior of the EC for a hypothetical RF frequency f{sub RF} = 212 MHz with the current 53 MHz for a given total beam population N{sub tot}. The density n{sub e} goes through a clear threshold as a function of N{sub tot} in a field-free region. As expected, the higher frequency leads to a weaker EC effect: the threshold in N{sub tot} is …

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We present here the PhIGs database, a phylogenomic resource for sequenced genomes. Although many methods exist for clustering gene families, very few attempt to create truly orthologous clusters sharing descent from a single ancestral gene across a range of evolutionary depths. Although these non-phylogenetic gene family clusters have been used broadly for gene annotation, errors are known to be introduced by the artifactual association of slowly evolving paralogs and lack of annotation for those more rapidly evolving. A full phylogenetic framework is necessary for accurate inference of function and for many studies that address pattern and mechanism of the evolution of the genome. The automated generation of evolutionary gene clusters, creation of gene trees, determination of orthology and paralogy relationships, and the correlation of this information with gene annotations, expression information, and genomic context is an important resource to the scientific community.

Intra-beam scattering (IBS) is the limiting factor of the luminosity lifetime for Relativistic Heavy Ion Collider (RHIC) operation with heavy ions. Over the last few years the process of IBS was carefully studied in RHIC with dedicated IBS measurements and their comparison with the theoretical models. A new lattice was recently designed and implemented in RHIC to suppress transverse IBS growth, which lowered the average arc dispersion by about 20% [1]. This lattice became operational during RHIC Run-8. We review the IBS suppression mechanism, IBS measurements before and after the lattice change, and comparisons with predictions.

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A second phase of a highfield dipole technology developmenthas been tested. A Nb3Sn block-coil model dipole was fabricated, usingmagnetic mirror geometry and wind/react coil technology. The primaryobjective of this phase was to make a first experimental test of thestress-management strategy pioneered at Texas A&M. In this strategy ahigh-strength support matrix is integrated with the windings to interceptLorentz stress from the inner winding so that it does not accumulate inthe outer winding. The magnet attained a field that was consistent withshort sample limit on the first quench; there was no training. Thedecoupling of Lorentz stress between inner and outer windings wasvalidated. In ramp rate studies the magnet exhibited a remarkablerobustness in rapid ramping operation. It reached 85 percent of shortsample(ss) current even while ramping 2-3 T/s. This robustness isattributed to the orientation of the Rutherford cables parallel to thefield in the windings, instead of the transverse orientation thatcharacterizes common dipole designs. Test results are presented and thenext development phase plans are discussed.

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There is a strong interest in low-energy RHIC operations in the single-beam total energy range of 2.5-25 GeV/nucleon [1-3]. Collisions in this energy range, much of which is below nominal RHIC injection energy, will help to answer one of the key questions in the field of QCD about the existence and location of a critical point on the QCD phase diagram [4]. There have been several short test runs during 2006-2008 RHIC operations to evaluate RHIC operational challenges at these low energies [5]. Beam lifetimes observed during the test runs were limited by machine nonlinearities. This performance limit can be improved with sufficient machine tuning. The next luminosity limitation comes from transverse and longitudinal Intra-beam Scattering (IBS), and ultimately from the space-charge limit. Here we summarize dynamic effects limiting beam lifetime and possible improvement with electron cooling.

Solid state experiments at extreme pressures (10-100 GPa) and strain rates ({approx}10{sup 6}-10{sup 8}s{sup -1}) are being developed on high-energy laser facilities, and offer the possibility for exploring new regimes of materials science. [Re 2004] These extreme solid-state conditions can be accessed with either shock loading or with quasi-isentropic ramped pressure pulses being developed on the Omega laser. [Ed 2004] Velocity interferometer measurements establish the high strain rates. Constitutive models for solid-state strength under these conditions are tested by comparing 2D continuum simulations with experiments measuring perturbation growth due to the Rayleigh-Taylor instability in solid-state samples. Lattice compression, phase, and temperature are deduced from extended x-ray absorption fine structure (EXAFS) measurements, from which the shock-induced a-w phase transition in Ti is inferred to occur on sub-nanosecond time scales. [Ya 2004] Time resolved lattice response and phase can be inferred from dynamic x-ray diffraction measurements, where the elastic-plastic (1D-3D) lattice relaxation in shocked Cu is shown to occur promptly (< 1 ns). [Lo 2003] Subsequent large-scale MD simulations have elucidated the microscopic dynamics that underlie the 3D lattice relaxation. Deformation mechanisms are identified by examining the residual microstructure in recovered samples. [Re 2004] For example, the slip-twinning threshold in single-crystal Cu …

A membrane consisting of multiwall carbon nanotubes embedded in a silicon nitride matrix was fabricated for fluid mechanics studies on the nanometer scale. Characterization by tracer diffusion and scanning electron microscopy suggests that the membrane is free of large voids. An upper limit to the diffusive flux of D{sub 2}O of 2.4x10-{sup 8} mole/m{sup 2}-s was determined, indicating extremely slow transport. By contrast, hydrodynamic calculations of water flow across a nanotube membrane of similar specifications predict a much higher molar flux of 1.91 mole/m{sup 2}-s, suggesting that the nanotubes produced possess a 'bamboo' morphology. The carbon nanotube membranes were used to make nanoporous silicon nitride membranes, fabricated by sacrificial removal of the carbon. Nitrogen flow measurements on these structures give a membrane permeance of 4.7x10{sup -4} mole/m{sup 2}-s-Pa at a pore density of 4x10{sup 10} cm{sup -2}. Using a Knudsen diffusion model, the average pore size of this membrane is estimated to be 66 nm, which agrees well with TEM observations of the multiwall carbon nanotube outer diameter. These membranes are a robust platform for the study of confined molecular transport, with applications inseparations and chemical sensing.

Cyclotrons, rings for precise nuclear mass spectrometry, and some light sources with extremely short bunches are operated or planned to be operated in the isochronous or almost isochronous regime. Also, many hadron synchrotrons run in the isochronous regime for a short period of time during transition crossing. The longitudinal motion is frozen in the isochronous regime that leads to accumulation of the integral of the longitudinal space charge force. In low-gamma hadron machines, this can cause a fast growth of the beam energy spread even at modest beam intensities. Additionally, the transverse component of the space charge effectively modifies the dispersion function and the slip factor shifting the isochronous (transition) point. In this paper, we discuss space charge effects in the isochronous regime and present experimental results obtained in the Small Isochronous Ring, developed at Michigan State University specifically for studies of space charge in the isochronous regime.

Using x ray magnetic linear dichroism (XMLD) for magnetometry requires detailed knowledge of its dependence on the relative orientation of polarization, magnetic moments, and crystallographic axes. We show that Ni{sup 2+} L{sub 2,3} XMLD in cubic lattices has to be described as linear combination of two fundamental spectra - not one as previously assumed. The spectra are calculated using atomic multiplet theory and the angular dependence is derived from crystal field symmetry. Applying our results to Co/NiO(001) interfaces, we find perpendicular coupling between Ni and Co moments.

Previous analyses in which flavor SU(3) was used to constrain the coefficients of sin {Delta}mt and cos {Delta}mt in the time-dependent CP asymmetries of B{sup 0} {yields} {eta}'K{sub S} and B{sup 0} {yields} {pi}{sup 0} K{sub S} are updated using new rate measurements of B{sup 0} decays into {pi}{sup 0}{pi}{sup 0}, {pi}{sup 0},{eta}, {pi}{sup 0}{eta}', {eta}{eta}, {eta}{eta}', {eta}'{eta}' and K{sup +}K{sup -}.

M{sub 2}Mn{sub 3}O{sub 8} (M=Ca{sup 2+}, Cu{sup 2+}) compounds were synthesized and characterized in lithium cells. The M{sup 2+} cations, which reside in the van der Waal's gaps between adjacent sheets of Mn{sub 3}O{sub 8}{sup 4-}, may be replaced chemically (by ion-exchange) or electrochemically with Li. More than 7 Li{sup +}/Cu{sub 2}Mn{sub 3}O{sub 8} may be inserted electrochemically, with concomitant reduction of Cu{sup 2+} to Cu metal, but less Li can be inserted into Ca{sub 2}Mn{sub 3}O{sub 8}. In the case of Cu{sup 2+}, this process is partially reversible when the cell is charged above 3.5 V vs. Li, but intercalation of Cu{sup +} rather than Cu{sup 2+} and Li{sup +}/Cu{sup +} exchange occurs during the subsequent discharge. If the cell potential is kept below 3.4 V, the Li in excess of 4Li{sup +}/Cu{sub 2}Mn{sub 3}O{sub 8} can be cycled reversibly. The unusual mobility of +2 cations in a layered structure has important implications both for the design of cathodes for Li batteries and for new systems that could be based on M{sup 2+} intercalation compounds.

Systematic error in the Long Trace Profiler (LTP) has become the major error source as measurement accuracy enters the nanoradian and nanometer regime. Great efforts have been made to reduce the systematic error at a number of synchrotron radiation laboratories around the world. Generally, the LTP reference beam has to be tilted away from the optical axis in order to avoid fringe overlap between the sample and reference beams. However, a tilted reference beam will result in considerable systematic error due to optical system imperfections, which is difficult to correct. Six methods of implementing a non-tilted reference beam in the LTP are introduced: (1) application of an external precision angle device to measure and remove slide pitch error without a reference beam, (2) independent slide pitch test by use of not tilted reference beam, (3) non-tilted reference test combined with tilted sample, (4) penta-prism scanning mode without a reference beam correction, (5) non-tilted reference using a second optical head, and (6) alternate switching of data acquisition between the sample and reference beams. With a non-tilted reference method, the measurement accuracy can be improved significantly. Some measurement results are presented. Systematic error in the sample beam arm is not addressed in …

Rotating mirror cameras have been the mainstay of mega-frame per second imaging for decades. There is still no electronic camera that can match a film based rotary mirror camera for the combination of frame count, speed, resolution and dynamic range. The rotary mirror cameras are predominantly used in the range of 0.1 to 100 micro-seconds per frame, for 25 to more than a hundred frames. Electron tube gated cameras dominate the sub microsecond regime but are frame count limited. Video cameras are pushing into the microsecond regime but are resolution limited by the high data rates. An all solid state architecture, dubbed ''In-situ Storage Image Sensor'' or ''ISIS'', by Prof. Goji Etoh, has made its first appearance into the market and its evaluation is discussed. Recent work at Lawrence Livermore National Laboratory has concentrated both on evaluation of the presently available technologies and exploring the capabilities of the ISIS architecture. It is clear though there is presently no single chip camera that can simultaneously match the rotary mirror cameras, the ISIS architecture has the potential to approach their performance.

As requirements for surface slope error quality of grazing incidence optics approach the 100 nanoradian level, it is necessary to improve the performance of the measuring instruments to achieve accurate and repeatable results at this level. We have identified a number of internal error sources in the Long Trace Profiler (LTP) that affect measurement quality at this level. The LTP is sensitive to phase shifts produced within the millimeter diameter of the pencil beam probe by optical path irregularities with scale lengths of a fraction of a millimeter. We examine the effects of mirror surface ''macroroughness'' and internal glass homogeneity on the accuracy of the LTP through experiment and theoretical modeling. We will place limits on the allowable surface ''macroroughness'' and glass homogeneity required to achieve accurate measurements in the nanoradian range.

The conceptual design of the high luminosity electron-ion collider, eRHIC, is presented. The goal of eRHIC is to provide collisions of electrons (and possibly positrons) with ions and protons at the center-of-mass energy range from 25 to 140 GeV, and with luminosities exceeding 10{sup 33} cm{sup -2} s{sup -1}. A considerable part of the physics program is based on polarized electrons, protons and He3 ions with high degree of polarization. In eRHIC electron beam will be accelerated in an energy recovery linac. Major R&D items for eRHIC include the development of a high intensity polarized electron source, studies of various aspects of energy recovery technology for high power beams and the development of compact magnets for recirculating passes. In eRHIC scheme the beam-beam interaction has several specific features, which have to be thoroughly studied. In order to maximize the collider luminosity, several upgrades of the existing RHIC accelerator are required. Those upgrades may include the increase of intensity as well as transverse and longitudinal cooling of ion and proton beams.

Energy loss due to wakefields within a long undulator, if not compensated by an appropriate tapering of the magnetic field strength, can degrade the FEL process by detuning the resonant FEL frequency. The wakefields arise from the vacuum chamber wall resistivity, its surface roughness, and abrupt changes in its aperture. For LCLS parameters, the resistive-wall component is the most critical and depends upon the chamber material (e.g., Cu) and its radius. Of recent interest[1] is the so-called ''AC'' component of the resistive-wall wake which can lead to strong variations on very short timescales (e.g., {approx} 20 0fs). To study the expected performance of the LCLS in the presence of these wakefields, we have made an extensive series of start-to-end SASE simulations with tracking codes PARMELA and ELEGANT, and time-dependent FEL simulation codes GENESIS1.3 and GINGER. We discuss the impact of the wakefield losses upon output energy, spectral bandwidth, and temporal envelope of the output FEL pulse, as well as the benefits of a partial compensation of the time-dependent wake losses obtained with a slight z-dependent taper in the undulator field. We compare the taper results to those predicted analytically[2].

LUX is a design study to develop concepts for future ultrafast x-ray facilities. Presently, LUX is based on an electron beam accelerated to {approx}3-GeV energy in a superconducting, recirculating linac. Included in the design are multiple free-electron laser (FEL) beamlines which use the harmonic cascade approach to produce coherent XUV and soft X-ray emission beginning with a strong input seed at {approx}200-nm wavelength obtained from a ''conventional'' laser. Each cascade module generally operates in the low-gain regime and is composed of a radiator together with a modulator section, separated by a magnetic chicane. The chicane temporally delays the electron beam pulse in order that a ''virgin'' pulse region (with undegraded energy spread) be brought into synchronism with the radiation pulse. For a given cascade, the output photon energy can be selected over a wide range by varying the seed laser wavelength and the field strength in the undulators. We present numerical simulation results, as well as those from analytical models, to examine certain aspects of the predicted FEL performance. We also discuss lattice considerations pertinent to harmonic cascade FELs, some sensitivity studies and requirements on the undulator alignment, and temporal pulse evolution initiated by short input radiation seeds.

This feasibility study of NOx adsorbers in heavy-duty diesel engines examined three configurations (dual-leg, single-leg and single-leg-bypass) in an integrated experimental setup, composed of a Detroit Diesel Class-8 truck engine, a catalyzed diesel particulate filter and the NOx absorber system. The setup also employed a reductant injection concept, sensors and advanced control strategies.

An improved Thermoelectric Generator (TEG) for the Heavy Duty Class Eight Diesel Trucks is under development at Hi-Z Technology. The current TEG is equipped with the improved HZ-14 Thermoelectric module, which features better mechanical properties as well as higher electric power output. Also, the modules are held in place more securely.

An integrated diesel engine-aftertreatment-vehicle system is extremely complex with numerous interacting variables and an unlimited number of control options. An experimental approach to develop an optimized viable system is tedious, if at all possible. Sophisticated component, subsystem and integrated simulation tools offer an excellent option of a virtual lab approach to the development of such a complex system. A viable and robust diesel engine aftertreatment system can thus be developed within optimum time and resources when this virtual simulation is integrated with selective hardware-based testing.

There exist hundreds of building energy software tools, both web- and disk-based. These tools exhibit considerable range in approach and creativity, with some being highly specialized and others able to consider the building as a whole. However, users are faced with a dizzying array of choices and, often, conflicting results. The fragmentation of development and deployment efforts has hampered tool quality and market penetration. The purpose of this review is to provide information for defining the desired characteristics of residential energy tools, and to encourage future tool development that improves on current practice. This project entails (1) creating a framework for describing possible technical and functional characteristics of such tools, (2) mapping existing tools onto this framework, (3) exploring issues of tool accuracy, and (4) identifying ''best practice'' and strategic opportunities for tool design. evaluated 50 web-based residential calculators, 21 of which we regard as ''whole-house'' tools(i.e., covering a range of end uses). Of the whole-house tools, 13 provide open-ended energy calculations, 5 normalize the results to actual costs (a.k.a ''bill-disaggregation tools''), and 3 provide both options. Across the whole-house tools, we found a range of 5 to 58 house-descriptive features (out of 68 identified in our framework) and 2 …