|
Student
Abstracts at ORNL:
A Case Study of Efficient Social Network Simulation through General Processing
on Graphics Processing Units. BRANDON
AABY (Maryville College, Maryville, TN, 37777) KALYAN S. PERUMALLA
PH.D (Oak Ridge National Laboratory, Oak Ridge, TN, 37831)
Agent based simulation has
been both a large area of study and a widely used tool for scientific research
in past
years. Current implementations run on standard CPUs, and with the requirement
of processing ever growing data sets, higher computational speed is of the utmost
importance. General processing on graphics processing units (GPGPU) is an emerging
platform offering the possibility of increased speed for data sets and models
that can be processed in parallel. Agent based simulation is one such candidate
for performance gains in a GPGPU implementation. My research has focused on thoroughly
investigating GPGPU’s suitability for providing researchers with a more efficient
way of conducting agent based simulation research. Studies were done using two
conventional models: two-dimensional diffusion and Conway’s Game of Life. I first
created an optimized CPU diffusion model and, following a determination of accuracy,
compared computational speed with an Open Graphics Library GPGPU implementation
previously developed at Oak Ridge National Laboratory. Similarly, like studies
were completed with the Game of Life. Following this strict CPU and GPGPU comparison,
further comparisons and analyses were conducted with a widely used agent based
simulation API, Repast. Evaluations involving Repast revolved around the premise
that were GPGPU to be harnessed by researchers for agent based simulation, it
must be competitive with currently used research technologies. Results obtained
with both two-dimensional diffusion and the Game of Life show significant performance
gains through GPGPU. For a plethora of data sizes, it has been found that the
GPU processes the models in parallel at much greater rates than both optimized
CPU code and Repast. Furthermore, as both sample size and the number of iterations
through the model increase, the gap between GPU and CPU performance becomes even
wider. These successful studies are to now be extended by investigating new models
through GPGPU and exploring compatibility with necessary agent based simulation
functions, such as image generation. Nonetheless, this research has certainly
shown that GPGPU has the potential to become an efficient and viable tool for
researchers.
A Case Study of the Performance of Speculative Asynchronous Simulation on Parallel
Computers. PATRICK WILKERSON (Austin Peay State University, Clarksville,
TN, 37044) KALYAN PERUMALLA (Oak Ridge National Laboratory, Oak Ridge,
TN, 37831)
Modern supercomputers use
thousands of processors running in parallel to achieve their high computational
speeds.
However, on such large processor counts, communication and synchronization operations
can waste valuable processor time. Communication involves processors exchanging
intermediate computed data that needs to be shared by processors at runtime.
Synchronization involves processors ensuring the mutual orderings of operations
across processors are correct. In this work, we investigated the runtime efficiency
of two methods that are aimed at reducing communication and synchronization costs,
respectively, namely, asynchronous updates and speculative execution. The experimental
investigation is performed on a parallel finite difference time domain (FDTD)
simulation developed at ORNL, which has wide applicability in simulating various
physical system phenomena. It uses an iterative algorithm to reduce communication
by allowing messages to be asynchronously sent when the change in values on a
given processor is greater than some threshold value. We conducted research to
develop an empirical performance study of the algorithm. The first part of asynchronous
updates is accomplished by exploring the effect of threshold-based communication
on overall runtime of the parallel simulation, with the number of processors
increasing. A significant improvement in performance on up to 64 processors was
observed when using the asynchronous update scheme, due to reduced communication.
We are currently working on the synchronization aspect of the problem, to relieve
the tight coupling among processors, using "speculative
execution" with sophisticated "rollback" techniques being developed
in an ORNL Laboratory Directed Research and Development (LDRD) project. In speculative
execution, processors are allowed to progress without having to wait for other
processors, but any violations in ordering of computations are detected and corrected
using rollback techniques. Further research is being done to implement a rollback
mechanism necessary for optimized parallel execution. Preliminary results on
a special case of the synchronization mechanism show improved speedup over and
above the gains of asynchronous updates on up to 64 processors. We are working
towards implementing the more general rollback method and expect to complete
the performance study on the generalized asynchronous speculative execution.
A Computational Model for Analyzing the Biochemical Pathways of Matrix Metalloproteinase
(MMP) 2&9 in Collagen Type IV Proteolysis. ELIZABETH
O'QUINN O'QUINN (Wofford College, Spartanburg, SC, 29369) KARA KRUSE
(Oak Ridge National Laboratory, Oak Ridge, TN, 37831)
Cardiovascular disease
is the leading cause of death in first world countries. The imbalance of matrix
degrading enzymes and structural proteins within the extracellular matrix of
an arterial wall is a critical factor in cardiovascular disease processes.
Matrix metalloproteinase-2 (MMP-2) and matrix metalloproteinase-9 (MMP-9) degradation
of collagen type IV results in migration and proliferation of vascular smooth
muscle cells; this can lead to further narrowing of a diseased artery. Kinetic
modeling of proteolysis is an approach which can be used to understand complex
systems by describing the enzyme’s mechanism and behavior quantitatively. In
this research project, a computational model of biochemical pathways involved
in activation and inhibition of MMP-2 and MMP-9 proteolysis of collagen type
IV is being developed. Separate MMP-2 and MMP-9 models have been implemented
within JSim, a software application developed by the University of Washington.
Since MMP-2 and MMP-9 pathways overlap, the individual models will be integrated
in the future. This MMP-2 model was also implemented in JDesigner, a tool of
the Systems Biology Workbench, and DEVS, a discrete event system specification,
for comparison of model environments. Various experimental methods for obtaining
quantitative reaction rate parameters were explored, including high pressure
liquid chromatography (HPLC) and florescence polarization. By pairing HPLC
separation, largely by hydrophobic property, with spectrometry techniques,
protein and peptide identification and quantification is possible. Previous
literature suggests the use of HPLC to measure enzymatic activity, by using
traces of the product/substrate itself as an internal standard. An experimental
protocol for the measurement of the enzymatic activity of MMP-2 and MMP-9 is
being developed. HPLC baseline standards for the individual substrates and
enzymes are currently being measured and optimized. After baseline standards
are determined the MMP enzymatic activity can be determined. The HPLC experimental
results will be analyzed to derive the reaction rate parameters needed by the
computational model. The use of HPLC methods to analyze the enzymatic activity
of MMP-2 with collagen type IV and other correlated substrates provides parameters
which cannot be obtained through literature. This research is in collaboration
with the Vascular Research Laboratory at the University of Tennessee Medical
Center in Knoxville.
A Rational Approach for Crystallization of Proteins in Deuterated Media. ALEXIS RAE DEL CASTILLO (California State University,
Chanel Islands, Camarillo, CA, 93012) HUGH O'NEILL (Oak Ridge National
Laboratory, Oak Ridge, TN, 37831)
Neutron crystallography is
emerging as a powerful tool for the study of protein structure and dynamics.
In neutron crystallography the neutrons interact weakly with the nucleus of an
atom and therefore are a highly penetrating and non-destructive probe. Unlike
x-rays, which interact with the electron cloud surrounding an atom, neutrons
can detect lighter atoms such as hydrogen in the presence of heavier ones and
differentiate between them. The aim of this study was to determine how deuterium
oxide influences the crystallization behavior of proteins compared to crystallization
in hydrogenated media. This will allow a rational design approach for growing
protein crystals for neutron crystallography. In order to achieve this goal a
range of proteins were selected for crystallization studies. Some proteins, such
as aprotinin, cytochrome c, B-lactoglobulin and papain were obtained commercially.
In addition, two variants of GFP, from Aequorea victoria and A.
coerulescens, were over-expressed in Escherichia
coli in
hydrogenated and deuterated media. The recombinant proteins were then purified
to homogeneity by three-phase partitioning and anion exchange chromatography.
The conditions for crystallization of each protein were determined using a high
throughput platform that can screen 1536 different crystallization solutions
simultaneously. Each protein produced crystals in several different solutions.
The conditions that produced crystals were then subjected to a second screening
procedure called Drop Volume Ratio Temperature (DVR/T) to further optimize and
refine the chemical and physical parameters that produced crystals in the initial
screen. A DVR/T phase diagram has been completed for aprotinin, cytochrome c,
B-lactoglobulin A and papain in hydrogenated buffer. Currently, a DVR/T screen
in deuterated buffer is underway for these proteins.
A Rational Approach for Crystallization of Proteins in Deuterated Media. ALEXIS RAE DEL CASTILLO (California State University,
Chanel Islands, Camarillo, CA, 93012) HUGH O'NEILL (Oak Ridge
National Laboratory, Oak Ridge, TN, 37831)
Neutron crystallography
is emerging as a powerful tool for the study of protein structure and
dynamics. In neutron crystallography the neutrons interact weakly with
the nucleus of an atom and therefore are a highly penetrating and non-destructive
probe. Unlike x-rays, which interact with the electron cloud surrounding
an atom, neutrons can detect lighter atoms such as hydrogen in the
presence of heavier ones and differentiate between them. The aim of
this study was to determine how deuterium oxide influences the crystallization
behavior of proteins compared to crystallization in hydrogenated media.
This will allow a rational design approach for growing protein crystals
for neutron crystallography. In order to achieve this goal a range
of proteins were selected for crystallization studies. Some proteins,
such as aprotinin, cytochrome c, myoglobin, phospholipase and others
were obtained commercially in their purified form. Green fluorescent
protein (GFP) and rubredoxin, were
over-expressed in Escherichia
coli and purified from cell-free extracts. The optimal conditions
for crystallization were determined using a high throughput platform that can
screen 1536 different crystallization conditions simultaneously. Expression of
recombinant proteins was induced with isopropyl ß-D-1-thiogalactopyranoside (IPTG).
The cells were lysed by sonication followed by centrifugation. The proteins were
purified by ion exchange chromatography and size exclusion chromatography. The
purification process was monitored by UV/visible absorption spectrophotometry,
circular dichroism spectroscopy, fluorescence excitation/emission and sodium
dodecyl sulfate (SDS) polyacrylamide gel electrophoresis (PAGE). Currently the
1536 screen in H2O
media has been completed for several of the proteins mentioned above and the
experiments to determine how D2O influences crystallization conditions are underway. In addition,
techniques to produce per-deuterated forms of GFP and rubredoxin are being developed
by adapting E.
coli to grow in D2O based media.
A Review of Empirical Methods for the Derivation of Parameters in a Theoretical
Model of Matrix Metalloproteinase 2 & 9 Proteolysis of Collagen
Type IV. ELIZABETH O'QUINN O'QUINN (Wofford College, Spartanburg,
SC, 29303) KARA KRUSE (Oak Ridge National Laboratory, Oak Ridge,
TN, 37831)
Cardiovascular disease
is the leading cause of death in first world countries. An imbalance of matrix
degrading enzymes and structural proteins within the extracellular matrix
of an arterial wall is a critical factor in cardiovascular disease processes.
An increase in matrix metalloproteinase-2 (MMP-2) and matrix metalloproteinase-9
(MMP-9), as part of the inflammatory process, results in degradation of collagen
type IV influencing the migration and proliferation of vascular smooth muscle
cells; this can lead to further narrowing of a diseased artery. Kinetic modeling
of proteolysis is an approach which can be used to understand complex systems
by describing enzymatic
mechanisms, cellular processes, and the system’s behavior quantitatively. In
this research project, a computational model of the biochemical pathways involved
in activation and inhibition of MMP-2 and MMP-9 proteolysis of collagen type
IV is being developed from empirical data and published data. Separate and integrated
models of MMP-2 and MMP-9 pathways have been implemented within JSim, a software
application developed by the University of Washington. In addition to the enzyme
model a cellular migration model is also being developed for the simulation of
VSMC migration and will be explored further. The utilization of reverse-phase
high pressure liquid chromatography (HPLC) methods for obtaining quantitative
reaction rate parameters are being explored for the estimation of parameters
not previously published in the literature. By pairing HPLC separation with spectrometry
techniques, protein and peptide identification and quantification are possible.
Experimental protocols for the measurement of the enzymatic activity of MMP-2
and MMP-9 proteolysis of collagen type IV are being developed to obtain empirical
data. These experimental results are then analyzed to derive the rate parameters
needed in the computational model. The use of HPLC methods to analyze the enzymatic
activity and cellular activity provides parameters which cannot be obtained through
literature. This research is in collaboration with the Vascular Research Laboratory
at the University of Tennessee Medical Center in Knoxville.
AC Losses in YBCO Superconducting Cables. DANIEL
SIMS (Tennessee Technological University, Cookeville, TN, 38505) ROBERT
DUCKWORTH (Oak Ridge National Laboratory, Oak Ridge, TN, 37831)
To better supply power
to dense urban areas, superconducting power cables are one solution that can
accomplish
this
within existing electrical ductwork. While "first
generation" Bi-Sr-Ca-Cu-O (BSCCO) tapes are currently being used in several
demonstration cable projects around the world, its cost may limit the market
penetration of commercial superconducting cables. As a potential low cost alternative, "second
generation" Y-Ba-Cu-O (YBCO) tapes have started to meet and exceed the current-carrying
performance of BSCCO tapes with lengths greater than 100 m and could be used
in superconducting cables in the near future. AC loss, which is the amount of
heat generation of a superconducting cable under ac current, is a critical design
parameter since it directly impacts the size of the cryogenic refrigeration system
and thus impacts the overall cost. The goal of this project is to make a technical
evaluation of current YBCO tape architectures, which are currently being supplied
in the United States by American Superconductor (AMSC) and SuperPower (SP). Prototype
cables with lengths of 1.25 m and former diameters of 3.81 cm were made from
the 4-mm wide YBCO tapes to evaluate the effect of the tape architecture on ac
loss. A well-established electrical measurement method and a thermal measurement
method were employed to accurately characterize each cable. A finite element
model was used to make sure that the heater used in the thermal method was sized
appropriately to match the heat generated by the cable. As a measure of the cable
performance, the critical current was measured under dc conditions and was found
to be 5380 A for the AMSC cable and 4400 A for the SP cable, which agreed well
with the single tape critical current for each type of YBCO. With respect to
the measured electrical ac loss at 3 kArms, the AMSC cable was 3 W/m, while the SP cable was 6 W/m. While
this might indicate some advantage to AMSC YBCO tapes, comparing the ac loss
in each cable as a function of the ratio of the peak current to the cable critical
current showed the functional dependence of each cable to be similar as the current
approached 3 kArms. Comparing the ac loss measurement methods, differences between
the thermal and electrical ac loss measurements suggest refinement of the thermometry
is needed and is currently under further investigation.
Agt1 Promoter Sequence Analysis in the Collaborative Cross Parental Mouse Strains. JEANNA KIDWELL (Christopher Newport University, Newport
News, VA, 23606) BRYNN VOY (Oak Ridge National Laboratory, Oak Ridge,
TN, 37831)
The Collaborative Cross (CC)
is a unique mouse genetic reference population being generated at the Oak Ridge
National Laboratory. This cross will consist of approximately one thousand recombinant
inbred (RI) strains of mice derived from eight parental strains that were chosen
for their genetic and phenotypic diversity. Each strain will contain a unique
combination of alleles from the eight parental genomes, creating a population
with genetic and phenotypic diversity on par with the human population and a
novel resource for the study of heritable disease in humans. We are using the
CC population to study the association between adipose tissue
production of Angiotensinogen (Agt)
on obesity and type 2 diabetes. Agt is the substrate for Angiotensin II, a bioactive hormone that
regulates insulin sensitivity as well as many other physiological processes.
We sequenced the Agt1 promoter
region (about 1.2 kilobases upstream from Agt1) in the 8 CC parental strains in an attempt to identify regulatory
polymorphisms that cause wide variation, up to 100-fold, of adipose Agt mRNA
expression levels across the CC parental strains. DNA was extracted from mouse
ear clips using a modified "Hot Shot" protocol (alkaline lysis followed
by neutralization). The Agt promoter was amplified using Polymerase Chain Reaction with
a series of six oligonucleotide primers. DNA sequencing was performed at the
UTK Molecular Biology Resource Facility. Sequence analysis indicates several
single nucleotide polymorphisms between the strains as well as a three base pair
deletion present in three strains (A/J, NZO, and CAST) and not present in the
other five strains (C57BL/6J, 129, NOD, PWK, WSB). Future experiments will be
directed towards determining the impact of these polymorphisms on Agt transcription.
Air Transport of Commercial Spent Nuclear Fuel (SNF) Assemblies. GIANCARLO
PENA (Florida International University, Miami, FL, 33174) JONATHAN
M. HAIRE (Oak Ridge National Laboratory, Oak Ridge, TN, 37831)
The world is experiencing
transformations as energy prices increase, and nuclear technology is not an
exception. However, the method of transporting spent nuclear fuel (SNF) has
not changed in decades. Currently, in the U.S., SNF casks are shipped by train,
truck, and ship. This work examined the technical feasibility of transporting
SNF casks by aircraft. Air transport of research reactor SNF has already occurred
between countries because of geographical and political reasons. It is concluded
that air transport of commercial spent nuclear power reactor fuel is feasible
in the U.S. with as many as 21 fuel assemblies shipped at one time. The major
constraint that limits the number of SNF assemblies is the lift weight of the
aircraft. This study uses the maximum aircraft payload as 154 tons - the net
payload of the Boeing 747-8 air freighter. Existing casks from different private
companies were analyzed. Sensitivity analyses were performed for transporting
different numbers of SNF assemblies. The smaller the number of SNF casks transported,
the lower the cask weight. Shielding analyses were conducted using ORNL computer
codes CAPSIZE, SCOPE, and SCALE, the objective when using these codes was to
optimize the amount of radiation shielding, while meeting regulatory radiation
dose requirements. Impact crash analyses were conducted with CTH code to demonstrate
crash compliance regulations. Recently, the U.S department of Energy (DOE)
submitted a license application for a permanent geological repository in Yucca
Mountain, Nevada. The cost of air shipments of SNF assemblies to surface storage
for SNF at Yucca Mountain is less than the costs of building the proposed railway
spur to the Yucca Mountain geologic repository. Nuclear power is essential
if the world intends to reduce the levels of greenhouse gases that warm the
earth and by adopting this method of transporting SNF, time and costs will
be reduced.
Analysis of Interstate Weigh Station Viewer Performance. RAMON
COLON MENDOZA (Florida International University, Miami, FL, 33015)
DAVID E. HILL (Oak Ridge National Laboratory, Oak Ridge, TN, 37831)
After the 9-11 attacks,
the United States has increased its focus on developing technologies designed
to warn us in the event of another attack, and to prevent these attacks from
happening. The Sensor Net research group at ORNL is participating in this effort
by developing systems to give critical real-time information to federal, state,
and local emergency
response decision makers. Sensor Net’s Southeastern Transportation Corridor Pilot
(SETCP) Project utilizes interstate weigh stations not only to weigh the passing
trucks but also to check for Gamma and Neutron radiation inside the truck without
the aid of a human in close proximity. My role is to characterize and analyze
the data from the South Carolina weigh station on I-26W and the Tennessee weigh
station on I-40 E. The purpose is to find patterns in the truck traffic as well
as to find patterns of inconsistency that the system makes repeatedly. Also I
analyze the improvement after the repairs. Inconsistence patterns are found by
analyzing the data, looking for missing information, and how often it happens.
Traffic Patterns are found by grouping all the data and making graphs and charts
that show the flow of the traffic, the kind of truck traffic, the number of alarms,
as well as other information. It has been found that Monday, Tuesday, Wednesday,
and Thursday the truck traffic is heaviest. Both the component to determine truck
length and the component to read each truck’s license plate were inaccurate,
but have now been fixed as a result of my data
analysis.
Analysis of Meteorological Observations Over the Former USSR, 1950-2000. GARRETT MARINO (Massachusetts Institute of Technology,
Cambridge, MA, 2139) DALE P. KAISER (Oak Ridge National Laboratory, Oak
Ridge, TN, 37831)
Climate change studies require
the processing and analysis of large compilations of meteorological data. Past
studies investigated trends in meteorological variables over the former Soviet
Union using data from a 223-station network spanning 1936-1990. A newly-acquired
update to the database includes data through 2000. The database has been made
available through cooperation between the two principal climate data centers
of the United States and the former Soviet Union: the National Climatic Data
Center, in Asheville, North Carolina and the All-Russian Research Institute of
Hydrometeorological Information - World Data Centre in Obninsk, Russia. Station
records consist of 6- and 3-hourly observations of 25 meteorological variables
including temperature, precipitation, cloud amount and type, pressure, humidity,
and wind speed and direction. The 6-hourly observations extend from 1936 through
1965; 3-hourly observations extend from 1966 through 2000. To ensure high data
quality, extensive quality assurance (QA) checks examined the data for completeness,
reasonableness, and accuracy. We found significant gaps in some records from
observational gaps or measurement values deemed erroneous. Also, World War II
and the breakup of
the Soviet Union affected some records’ completeness. Therefore, this analysis
examined the period 1950-2000 for 125 stations. Total and low cloud amount, frequencies
of various cloud types, and air temperature were all extracted from the dataset
and plotted by station to assess variability and any long-term trends. The results
showed that trends found by previous researchers using data through 1990 have
continued through 2000. Total cloud cover significantly increased (95% confidence
level) at 0.2%/decade despite a significant decrease in low cloud cover of 1.1%/dec.
Meanwhile, low level stratiform clouds significantly decreased by 1.6%/dec and
cumulus clouds significantly increased at 1.4%/dec. Stratiform clouds are associated
with atmospheric stability and frontal passages. A warmer planet and the resultant
reduction of both the meridional temperature gradient and atmospheric stability
may be causing these cloud trends. Air temperature did exhibit a significant
increase of 0.2°C/dec. The Russian database represents a wealth of meteorological
information for a large and climatologically important
portion of the earth’s land area, and should prove useful for a wide variety
of additional regional climate change studies.
Analysis of the Biological Effects of Aspirated Carbon Nanohorn Particles in
Mice using Scanning Near-Field Ultrasound Holography. KATHERINE
VENMAR (Denison University, Granville, OH, 43023) THOMAS THUNDAT (Oak
Ridge National Laboratory, Oak Ridge, TN, 37831)
Engineered nanomaterials,
because of their enhanced physicochemical properties compared to their bulk form,
are finding an increasingly important role in many potential commercial applications.
However, the health effects of nanomaterials are not well understood or thoroughly
investigated. Therefore, more studies are needed to examine different types of
nanomaterials and the biological responses they invoke. The purpose of this research
was to examine the effects of aspirating single-walled carbon nanohorns (SWCNHs)
in vivo using mice. Bronchoalveolar lavage (BAL) and blood samples were collected
from two experimental groups, the nanohorn exposed, and the control mice. Three
mice from both groups were sacrificed 24 hours and 7 days after aspiration. Gross
examination of the number of macrophages versus activated macrophages in BAL
samples from the exposed and the control mice suggested a possible pro-inflammatory
response to the carbon nanohorns. Employing a unique detection technique, Scanning
Near-Field Ultrasound Holography, carbon nanohorns were discovered bound to cell
membranes, inside cells, and near cells in both the red blood cells and BAL sample
cells. The positioning of carbon nanohorns inside the cells not bound to a membrane
suggests that they entered the cell through a process other than phagocytosis.
Furthermore, the red blood cells (RBC) in all the exposed blood samples exhibited
a distorted phenotype. Such distortions could possibly lead to various pulmonary
diseases. From their ability to permeate membranes, cause pro-inflammatory responses,
and distort the phenotype of red blood cells, it can be concluded that carbon
nanohorns may
pose a biological threat.
Angiotensinogen Expression in Collaborative Cross Offspring. ADAM LUNDQUIST
(Christopher Newport University, Newport News, Va, 23606) BRYNN H. VOY
(Oak Ridge National Laboratory, Oak Ridge, TN, 37831)
The Collaborative Cross (CC)
is an emerging population of recombinant inbred (RI) lines of mice designed to
untangle complex webs of genetic interactions. The CC, now being implemented
at Oak Ridge National Lab (ORNL), is being created from 8 diverse inbred strains
of mice bred to produce 1000 RI strains, with every resulting strain containing
a portion of the genome from each of the 8 parental strains. The genetic and
phenotypic diversity of these 1000 RI strains will model that found in human
populations, making the CC a valuable resource for dissecting the genetic contributors
to complex traits such as obesity and hypertension[1]. This diversity, coupled
with the known genotypes of the animals, will be utilized to map and dissect
the genetics of complex traits, which are phenotypes produced from the interaction
of multiple genes. We are interested in obesity a complex trait involving many
genes interacting within multiple metabolic pathways. One such gene known to
play a role in both obesity and hypertension is angiotensinogen, Agt. Agt is
a vascular constrictor expressed in adipose tissue; its expression varies widely
among the eight CC parental strains. In order to study Agt expression in the
intermediate CC generations, those whose genomes have yet to be fixed by inbreeding
(strict brother-sister mating for 20 generations), we extracted RNA from adipose
tissue, reverse transcribed it into complementary DNA (cDNA), and utilized quantitative
Polymerase Chain Reaction (qPCR) techniques to determine mRNA expression levels.
Agt expression levels ranged widely (~ 15-fold) across the sampling of CC mice,
indicating tha the diversity of this molecular trait in CC mice reflects that
of a human population. Our results provide insight into the effects that mixing
diverse genetic backgrounds have on Agt expression in these RI mice and will
lead to future mapping of genomic
loci involved in complex
metabolic traits.
Application to Determine and Control Twiss Parameters of the SNS Accelerator
Beam. JENS VON DER LINDEN (University of Pennsylvania, Philadelphia,
PA, 19104) SARAH COUSINEAU (Oak Ridge National Laboratory, Oak Ridge,
TN, 37831)
The accelerator ion beam
at the Spallation Neutron Source (SNS) is repeatedly focused and defocused
by a series of quadruple magnets as it travels to the target to create neutrons
by means of spallation. Physicists are interested in characterizing the accelerator
beam in order to understand and improve the focusing and transport of the beam.
Wire scans are employed to measure the traverse density profile of the beam.
With a minimum of 3 distinct wire scans, the ion beam Twiss parameters, which
characterize the phase space properties of the beam, can be determined. In
this project, a Graphical User Interface (GUI) Application was developed in
JAVA to automate the determination of Twiss parameters from the wire scan data
files and to determine how quadruples should be varied to change the Twiss
parameters at multiple arbitrary locations. The software is coded within the
XAL framework, an existing JAVA library developed at the SNS accelerator which
is used for all GUI-based physics software applications. A major contribution
of the JAVA GUI developed in this project is that it is generally applicable
to any area of the accelerator containing a minimum of 3 wire scanners. Existing
applications were tied to specific parts of the accelerator. Twiss results
can be saved and compared through graphing and averaging. As the SNS is a high
intensity accelerator which requires strict control over the beam losses, it
is very important that the beam in the accelerator be transported according
to the optimum design configuration. Any deviation from the optimum transport
configuration can lead to beam loss that can limit the obtainable beam power
in the accelerator. This application will aid in measuring the beam state at
any point in the accelerator, and will subsequently allow a user to make adjustments
to the beam state in order to restore the optimum configuration and ensure
well
controlled beam transport.
Bending Kirkpatrick-Baez Mirrors for Neutron Focusing. ANTHONY
FIELDS and JAY PATEL (South Carolina State University, Orangeburg, Sc,
29117) DR. GENE E. ICE (Oak Ridge National Laboratory, Oak Ridge, TN,
37831)
Neutron scattering is useful
for analyzing the atomic structure and defect density of materials. Because neutrons
have spin, an isotope-dependent scattering cross-section and are penetrating,
neutron beams are particularly well suited for the study of magnetic materials,
bulk materials and for the study of low Z or mixed Z structures. Several techniques
for directing a beam of neutrons to a sample are available. While guide tubes
and collimators work well for large sample sizes, focusing becomes increasingly
important as the neutron probe dimension and sample sizes become small. The importance
of high-performance nondispersive focusing optics for neutrons has just recently
been recognized. In micro-focus experiments, we consider the need for convenient
wavelength tuning and/or broad bandpass beams. This favors achromatic methods
based on specular reflection. The Elliptical Kirkpatrick-Baez (KB) scheme offers
the best flexibility and neutron gathering power, and can nondispersively image
neutrons to small spots with high intensity and source-limited brilliance. The
KB geometry uses crossed mirrors in grazing-incidence. With perfect elliptical
KB mirrors, spherical aberration can be eliminated. We have adopted techniques
for producing elliptical neutron mirrors by controlled bending. The need to control
the slope errors in the mirrors is very important. The mirrors, the bending control
mechanism, and supports are integrated as a unit. Both mirrors are attached to,
and bent by a leaf spring mechanism. We have used a laser beam to simulate a
thermal neutron beam for system calibrations; we determine the radius of curvature
of the mirror as a function of bender settings (coupling force). Results show
changes in the focal length (and subsequently in the radius of curvature) with
micrometer setting. From these results we can determine the optimum radius of
curvature of the mirrors for minimum slope errors. The mirror in the vertical
plane sags under gravity and therefore, introduces a mixture of defocus and spherical
aberration. We have designed passive corrections by a series of springs under
the mirror. A computer program has been written to calculate the gravitational
curvatures and slope errors as a function of the number of support springs and
loading conditions. Simulation results show that the effect of one spring alone
reduces the slope errors by a factor of 10 and with three spring supports, slope
errors are reduced by over a factor of 100.
Binding Superhydrophobic Powder to Surfaces for Dielectric Purposes. MARY HADLEY (Vanderbilt University, Nashville, TN,
37235) ENIS TUNCER (Oak Ridge National Laboratory, Oak Ridge, TN, 37831)
Outdoor insulators used in
high voltage transmission lines and substations are constantly under environmental
stress leading to power interruptions, flashovers, etc. One common occurrence
in polluted areas is excess water collecting on insulators promoting dry band
arcing. It has been shown that hydrophobic materials are the solution to avoiding
this event. These materials do not interact with water molecules forcing them
to bead up instead of collecting into films. This unique surface quality also
makes the hydrophobic materials self-cleaning in wet environments. Traditional
hydrophobic materials for outdoor insulation have been silicone rubber based
materials. Recently other material formulations with fluor based compounds have
been proposed. In this study, a superhydrophobic (SH) material made of a glass-based
powder is investigated. The material alone does not adhere to surfaces, so research
was performed to find a polymer that will bind the particles to a surface while
maintaining SH qualities. Test surfaces were prepared by making six solutions
of SH powder, a binder, and an alcohol solvent and then dispensing the solution
onto plastic and glass slides. Binders tested were polyvinyl butyral resin (PVB),
polymethyl methacrylate (PMMA), Rhoplex Fastrack X-tended Seasonal Range resin
(XSR), and Araldite resin. Hydrophobicity was tested by measuring the radii of
water droplets to calculate contact angles and wettability by recording radii
of droplets over time. The surfaces were also observed for scratch resistance,
adhesion, and cohesion.
Three mixtures showed high angles of approximately 130° to
133°. PVB surfaces had high wettability and poor cohesion, and surfaces made
with a higher ratio of binder had poor adhesion. The resin and XSR surfaces maintained
some scratch resistance. These tests prove the best surface investigated in this
research is made with 0.8g of SH powder and 0.4g of XSR. It repels water for
an extended time and maintains the highest contact angle at 133°. This surface
is not deemed SH because its contact angle is below 150°, but this mixture is
most able to remain hydrophobic. The particle mixture forms a consistent film
and adheres well to surfaces, but only fair scratch resistance makes it imperfect
for potential application. These results are part of ongoing research to determine
polymers that bind to particles and withstand environmental conditions experienced
in polluted areas.
Collaboration and Implementation of Disruptive Technologies in the Emergency
Response Environment (I-ReSCUE). CARTER
DEDRICK (University of Memphis, Memphis, TN, 38105) DONALD E. VINSON
(Oak Ridge National Laboratory, Oak Ridge, TN, 37831)
Emergency response operation
and networks are naturally collaborative in nature; however, due to recent catastrophic
events and legislation, these networks have been encouraged to become more centralized.
There is ongoing research at Oak Ridge National Laboratory involving the adaptation
of existing technologies to National Security solutions. The goals for my part
of the project are to describe ways in which beneficial Disruptive Technologies
act as a decentralizing force within the emergency response environment on a
local level, diagram the overall emergency response environment and propose a
theory for an improved planning and response tool. This is accomplished through
literature review, interviews, and analysis of current response tools available.
Research was conducted to develop theory for an interactive emergency response
program to be constructed on an existing platform and explore how Disruptive
Technologies can best be utilized. Compartmentalization of resources within emergency
response cultures result in slow growth of innovations within the emergency response
environment. Research into the connections of these networks is mapped and the
ideal response network discussed. Requirements include management of interagency
agreements, the ability to expand vertically and horizontally as needed for response
to changing events, and include non-profit representatives. Collaboration in
emergency response networks is currently carried out, and can be mapped on vertical
as well as horizontal axes. The vertical collaboration axis begins with the local
EMA (emergency management agency) and expands upward as the events grow larger
to include the state and Federal EMA. The horizontal collaboration axis shows
the relationship between nonprofit and other NGOs (non-governmental organizations)
to the vertical collaboration within the public sector EMA. Collaboration is
best facilitated by policies that allow responders to create connections as opposed
to those that merely limit abilities. Disruptive Technologies must be embraced
and utilized on a wide and daily basis in order to be of any use in the event
of an emergency.
Computational Development of H- Ion Sources for the Spallation Neutron Source. JUSTIN CARMICHAEL (Worcester Polytechnic Institute,
Worcester, MA, 1609) ROBERT F. WELTON (Oak Ridge National Laboratory,
Oak Ridge, TN, 37831)
The US Spallation Neutron
Source (SNS) requires a high power H- ion source in order to achieve the desired
neutron flux. Over the next several years, the SNS will require substantially
higher average H- beam current than can be produced from conventional H- ion
sources including our baseline source. H- currents of 70-100 mA with an RMS emittance
of 0.20-0.35 mm mrad and a ~7% duty-factor will be needed for the SNS power
upgrade project. Presently, external antenna sources, based on Al2O3 plasma chambers,
have been developed which have been shown to produce beam currents of 25-35 mA
with a duty-factor of 2-3%. Computer simulations employing the Finite Element
Method (FEM) with coupled fluid dynamic, heat transfer, and thermal stress and
deformation capabilities have been performed to investigate the design of the
plasma chambers operating at higher duty-factors. These simulations show that
a plasma chamber made from AlN can be designed to meet the full duty-factor requirement.
In order to meet the beam current requirements, efforts are being made to (i)
increase source plasma density by using magnetic confinement and (ii) improve
the efficiency of ion extraction from the plasma. Towards these ends simulations
are being performed using LORENTZ for magnetic field modeling and COSMOS for
thermal analysis of the electron dumping electrode. An AlN plasma chamber, a
solenoid confinement magnet and an electron dumping electrode have been designed.
It is anticipated that substantially greater beam currents can be achieved with
these improvements
to the ion source.
Control of Carbon Nanofiber Alignment During Growth in Plasma Enhanced Chemical
Vapor Deposition Processes. RYAN PEARCE
(University of Tennessee, Knoxville, TN, 37916) MICHAEL SIMPSON (Oak
Ridge National Laboratory, Oak Ridge, TN, 37831)
Carbon nanofibers are just
recently coming under scrutiny with a number of potential uses such as gene delivery
arrays
and neuronal interfaces. Nanonofibers have
a stacked “herringbone” structure, giving them a very high aspect ratio, which
is what lends them such a great range of possible applications. Carbon nanofibers
are typically grown using a process called “Plasma Enhanced Chemical Vapor Deposition” (PECVD).
In this process, a silicon wafer with nickel deposited on it in a specific pattern
is placed on a heater in a vacuum chamber. The heat is turned on and ammonia
(NH3) and Acetylene (C2H2) are introduced into the chamber at a specific pressure
and flow rate. A plasma is induced which causes the carbon from the C2H2 to deposit
on the nickel dots, forming the carbon nanofibers. This process forms vertically
aligned carbon nanofibers. Our project aims to find a technique to control the
alignment of the nanofibers during growth. The way we do this is by changing
the method whereby gas is introduced into the system. Classically, the gas flows
into the chamber perpendicular to and far away from the surface of the wafer,
so that only the ratio of gases affects the growth, and not the flow rate. What
we do is place a nozzle directly over the wafer so that the gas flows directly
over it. We devise an optimal regimen for growth where we only vary the total
flow, keeping the ratio of gases constant. After growth, we observe the wafer
under a scanning electron microscope. We have found that nanofibers respond to
the variations in flow by tilting along the flow. There are some aspects of this
study that require further investigation. First, we need to determine the correlation
between angle of tilt and flow rate, which can be done by setting up a series
of experiments keeping the total flow variable in a stepped sequence and measuring
the resulting angle formed by the nanofibers and the substrate. Then, flow ratio
needs to be varied to determine the resulting effects. Another method of creating
tilt in nanofibers is through variance in the electric field during PECVD. Towards
the edge of the field, this causes the nanofibers to “bend.” This technique is
impractical, however, as only the fibers grown on the very edges of the field
are affected. Our study is fundamental in understanding how to control nanofiber
growth, which will lead to an overall better understanding
of nanoscale fabrication.
Cyber Security at Oak Ridge National Laboratory. BOBBY
SWEET (Roane State Community College, Oak Ridge, Tn, 37840) VICTO HAZLEWOOD
(Oak Ridge National Laboratory, Oak Ridge, TN, 37831)
The Office of the Chief Information
Officer (OCIO) has the responsibility to ensure that all information technology
(IT) is managed to all statutory, regulatory, and organizational requirements
which can be found in the Certification and Accreditation package which documents
the Oak Ridge National Laboratory (ORNL) Cyber Security Program Plan. In the
case of ORNL, who has over ten thousand computer systems, there are systems that
will not comply with these standards for a variety of operational and other reasons.
The OCIO ensures that computing resources are managed to requirements with some
mitigation in place for systems where the requirements could not be met. In many
cases, a security plan will provide the basis for the mitigation for systems
or collections of systems that cannot meet all the requirements. Security planning
was our main emphasis this summer. There were approximately two-hundred forty
systems at the start of this summer that needed a security plan in place, if
they were going to stay on the ORNL network. A process needed to be developed
and implemented to address the two-hundred forty systems and their required security
plans in the most efficient manner within a limited amount of time. Four security
planning meetings were given to communicate the security planning process. It
is expected that these meetings will be held each month to keep up with new systems
that might not meet requirements and require a security plan. Three questionnaires
were created for the different control categories to help the owners of the devices.
The three different control categories were moderate with enhanced, moderate,
and low. The categories are determined by the sensitivity of information each
of these systems would hold (moderate with enhanced requiring the most controls
of the three). The classes have been completed and the resources have been distributed
to the system owners and administrators to start their security plan process.
The ORNL security planning project has been developed and is being implemented.
The security planning process will continue to be improved in the effort to protect
the devices that are not able to satisfy all cyber security requirements. This
project is designed to protect the devices making them as safe as possible from
intruders or unauthorized access by providing a mitigation strategy when a device
cannot implement one or more required cyber
security requirements.
Design for Increased Functionality of the Hot Cells inside the Radiochemical
Engineering Development Center. BRENT
BEATTY (University of Tennessee, Knoxville, TN, 37916) JEFFREY BINDER
(Oak Ridge National Laboratory, Oak Ridge, TN, 37831)
The Radiochemical Engineering
Development
Center (REDC) has been the United States’ main production center for transcurium
elements since operations began in 1966. Together with the neighboring High Flux
Isotope Reactor (HFIR) these facilities produce transuranium elements for commercial
and research purposes. The facilities’ technologies and capabilities gained through
a vast production history allow for an ideal test bed for Global Nuclear Energy
Partnership’s (GNEP) Coupled End to End (CETE) demonstration. The purpose of
the demonstration is to perform mechanical and chemical processes on actual spent
nuclear fuel, which will confirm the projected material flow and performance
data and with extensive experimental data. While the specialized support infrastructure
for hot cell processing has been in place for forty years, there are still design
improvements to the current operational flow necessary to fully accommodate all
aspects of the demonstration and to enhance future capabilities of the facility
to attract new projects. Many of the cubicles have not been updated in several
years and were designed primarily for targets and fuel elements from HFIR. The
CETE demonstration will be performed on many different fuel pins and assemblies
from many reactor designs. In order to accommodate this larger variety of experimental
components, I designed and
coordinated fabrication of a new "disconnect well" and the associated "containment
thimble" for the remote hot cell welder. These modifications will double
the length of components that may be processed in the hot cell. This design adds
functionality and increases the flexibility required to process the diverse fuel
components with minimal impact on the safety specifications and operational requirements
and uses materials that did not require new certification for use in REDC. Due
to the increased load that will be on the "disconnect well" flange,
a calculation was made confirming the ability of the new design to support the
added load. The increased moment of the assembly required an updated seismic
analysis which was performed and documented in the facility handbook. As the
world accepts Nuclear Energy, facilities like REDC have an important and unique
role in demonstrating and validating new advanced chemical processes. There are
many additional updates and improvements that will have to be made similar to
the redesigned "disconnect well" discussed here in order to fully modernize
this key facility.
Designing and Implementing Graphical User Information (GUI) Components for
the Automation of the Analysis of RTBT Wire Scanners' Data. KARLA
WARD (Tennessee State University, Nashville, TN, 37209) TED WILLIAMS
(Oak Ridge National Laboratory, Oak Ridge, TN, 37831)
Spallation Neutron Source
(SNS) located at Oak Ridge National Laboratory (ORNL) is home to the world's
highest-energy-pulsed H-ion particle accelerator. The accelerator sends an
intense proton pulse to a heavy atomic nucleus of mercury to produce neutron-scattering.
Within the accelerator complex are five different sections that work together
to result in this neutron-scattering: the linac, the high energy beam transport
(HEBT), the ring, the ring to target beam transport (RTBT), and the mercury
target. The Linac accelerates the beam to 90% of the speed of light. The HEBT
transports the beam from the linac to the ring. The ring stores the protons
and the RTBT transports the beam to the mercury target, which gets bombarded
by the beam at 60 times per second. The RTBT region of the accelerator is of
particular importance currently because this is where data is taken that relate
to the size and horizontal and vertical position of the beam before it reaches
the target. Wire scanners perform the process of taking the data from the RTBT
and placing it into a file to be analyzed, and with the help of a computer
program the operators of the accelerator analyze this data. To speed up the
analysis of data from the RTBT wire scanners, the analysis program rtbtwizard
was modified to improve and enhance the functionality between the user and
the data processing routines. Specifically these modifications included the
addition of “Cut, Fit and Store All”, “Percent Range”, “Noise Subtraction”,
and “Clear Data Table” buttons into an already existing panel. The activation
of these buttons produce a series of actions which include automatic Gaussian
fitting, storing analyzed data, finding and eliminating the noise floor, and
clearing the data table. These modifications resulted in a more efficient procedure
for the operators of the accelerator to analyze the size and position of the
beam on the target. This in turn improves the probability that there will be
a reduction in activation at the target, damage to the nose cone of the target,
and ensure maximum neutron production.
Determining the Ability to Monitor the Viability of Transplant Rat Glioma Cells
with an Optically Enhanced Catheter. RACHEL
DYER (St. Olaf College, Northfield, Minnesota, 55057) BOYD M. EVANS
III (Oak Ridge National Laboratory, Oak Ridge, TN, 37831)
Approximately fifty thousand
cases of Parkinson's Disease are diagnosed within the United States each year.
This debilitating disease results from the dissolution of dopamine-dependent
communication between the substantia nigra and the striatum of the brain. Cellular
replacement therapy, in which stem cells are introduced to supplant dead or stressed
cells, has shown promise in animal models. However, the viability of transplanted
cells and their survival rate is poorly accounted for by early tests. A novel
design coupling a surgical catheter with fiber optic technology provides a tissue
delivery platform that can monitor cell viability with sensing techniques widely
accepted in the medical industry. The goal of this work is to monitor the health
of transplant cells in real time at the final point of delivery using the optically
enhanced catheter. Rat glioma cells were separately labeled with CellTracker
Orange (CTO)
(Invitrogen) and JC1 stain from
BioVision’s MitoCapture Mitochondrial Apoptosis Detection Kit and fluorescence
was characterized by confocal microscopy. CTO exhibited a single emission peak
at 570 nm upon excitation with a 488 nm argon laser. JC1 exhibited two emission
peaks corresponding to fluorescence of viable cells and apoptotic cells, 595
and 540 nm respectively. JC1 was used to monitor the viability of cells under
apoptotic conditions induced by incubating JC1-labeled cells with carbonyl cyanide
3-chlorophenylhydrazone or etoposide. Observation of fluorescence using a mercury
fluorescence microscope over a four hour period demonstrated JC1’s ability to
shift in color to reflect cell viability. To detect cell movement through the
catheter, cells were labeled with CTO, excited by an argon ion laser with a 501
nm wavelength and a peak emission at 570 nm was detected by an Ocean Optics spectrometer.
JC1 was also used to detect the movement and the viability of cells through the
catheter. Cells excited by an argon ion laser with a 488 nm wavelength exhibited
emission peaks at 540 and 595 nm, demonstrating the ability to detect both viable
and apoptotic cells at the final point of delivery. From the detection of rat
glioma cells labeled with CTO and JC1 using the diagnostic catheter, and the
characterized response of JC1-labeled cells to apoptotic conditions, it can be
concluded that these fluorescent probes are suitable for tracking and monitoring
the viability of transplant cells through the optically enhanced catheter.
Determining the Optical Properties of Biological Tissue Samples Using an Integrating
Sphere Method. MARCUS ALLEGOOD (North Georgia
College & State University, Dahlonega, GA, 30553) JUSTIN S
BABA (Oak Ridge National Laboratory, Oak Ridge, TN, 37831)
Wavelength dependent
light interaction with biological tissue can be described using three parameters:
the scattering and absorption coefficients and the cosine of the average
scattering angle (g). To accurately determine these optical properties for
different types of tissue at specific wavelengths would be beneficial for
a variety of different biomedical applications. The goal of this project
was to take a user defined g-value and determine the remaining two parameters
for a specified range of wavelengths. In order to collect the needed data
for all the wavelengths in a timely and accurate manner, a fully automated
computer program and process was developed. Using a single integrating sphere
method, scattered light intensity inside the sphere was recorded via a spectrometer
as either transmitted or reflected light from the tissue sample. LabVIEW
was used to write programs to collect raw intensity data from the spectrometer,
to convert the data into a format for C code execution, and to compute the
optical properties based on the collected data. To make the process fully
automated, the LabVIEW and C code programs were linked together into one
single program to allow data to be passed between the two efficiently. The
automated program was tested using a tissue mimicking phantom and determination
of the absorption and scattering coefficients showed excellent agreement
with theory. Future work and the final phase of testing will entail examining
actual biological tissue with known optical properties to check for accuracy
before proceeding to utilize the system for its intended purpose. Ultimately,
the data collection process and algorithms developed through this effort
will be applied to build models for light interaction with biological tissue
samples.
Developing a Proof-of-Concept CyberInfrastructure for the USA National Phenology
Network. BENJAMIN CROM (University of Tennessee, Knoxville,
TN, 37916) BRUCE E. WILSON (Oak Ridge National Laboratory, Oak Ridge,
TN, 37831)
Phenology is the study
of the timing of naturally recurring events, such as flower blooming, particularly
those influenced by environmental changes. Phenological measurements are extremely
valuable indicators of local, regional, and global climate changes. Further,
phenological variations have a variety of crucial environmental and socio-economic
implications. Despite this value, broadly distributed phenological measurements
are almost non-existent in the USA, in contrast to some European countries.
The objective of this work is to explore and evaluate different data models
and data management methods needed for the development of the cyberinfrastructure
for a new data resource: the USA National Phenology Network (USA-NPN). The
USA-NPN will create a national repository for submitting and retrieving a wide
range of phenological data, including data from existing research networks
and from citizen scientist observers. For this project, we have been focusing
on the data model and information management tools necessary to support the
citizen scientist aspect of USA-NPN, based on existing work from the Plant
Phenology Network (PPN). A key feature at this stage of the program is for
citizen scientists to enter phenological observations on any of the 38 species
currently in the PPN. The USA-NPN will also require basic tools for observers
to retrieve their own data and the publicly available data. We have created
a simple but flexible database schema which we are testing against a range
of ways the system may be used. This schema is an improvement over the current
PPN tools, which use separate text files for each species. We are also working
on improving the registration and authentication processes. The user is now
able to create login credentials and submit personal contact information without
PPN staff intervention. This reduces staff load and the revised data entry
forms greatly improve the tracking of data provenance. Our current work will
improve session management operations and may enable OpenID authentication.
We intend to streamline the maintenance of data submission pages by eliminating
the current 38 separate submission pages in favor of one master submission
page driven by the underlying database. We will also add a data retrieval page
which will give users access to public phenology data. The data offered by
this network will contribute to a better understanding of climate change and
help engage citizen
scientists in climate change science.
Development of 40% Energy Saving Home. JACOB
BONAR (University of Tennessee, Knoxville, TN, 37916) JEFFREY E. CHRISTIAN
(Oak Ridge National Laboratory, Oak Ridge, TN, 37831)
The demand for energy continues
to rise throughout the world. One place that everyone can reduce energy consumption
is in their home. This is especially true of new homes built with energy efficiency
in mind. The goal of my research is to show that a new home can operate with
a total energy savings of 40%. The major areas to look closely at are building
tightness, appliances installed in the home, and the proper sizing of the HVAC
(Heating, Ventilation, and Air Conditioning) system. I will gather the necessary
data to prepare a report for the fifth Zero Energy Home, ZEH5. The report concerning
only the top floor of ZEH5 will cover how to build a house that has an energy
savings totaling 40%. Included in the report detailing ZEH5 will be my write
up describing the HVAC sizing using Manual J 8th Edition analysis, which I will
conduct for ZEH5. I will work with Jeff Christian to measure and document the
airflow rates in ZEH5 distribution system using a flow hood and the whole house
air tightness using a blower door. In addition to these sections, an Energy Gauge
packet will also be included in the documentation. One major part of the Energy
Gauge packet and associated write up will be a comparison between the ZEH5 and
the Building America benchmark home. After looking at the energy consumption
for a physical year, ZEH5 consumed a daily average of $0.66/day. This is lower
than ZEH1-4 homes that consumed between $0.75-$1.01. Two more homes are in development
that will continue the research towards a true Zero Energy
Home.
Development of a Mathematical Model for Intimal Hyperplasia due to Vascular
Injury. NATHAN SUMMERS (University of Tennessee, Knoxville,
TN, 37916) RICHARD WARD (Oak Ridge National Laboratory, Oak Ridge,
TN, 37831)
Intimal hyperplasia (IH)
is the thickening of the arterial wall in response to an injury of the blood
vessel. IH results from the migration of vascular smooth muscle cells (VSMCs)
from the medial to the intimal layer of the blood vessel wall and is believed
to be directed by biochemical concentration gradients, a process known as chemotaxis.
The primary chemotactic biochemical appears to be platelet-derived growth factor
(PDGF) which is produced by platelets adhering to the arterial wall and macrophages
invading the intima. The induced migration can be quantified using individual
cell tracking or through cell population assays. The parameters for individual
cell assays, such as average cell speed and persistence time (the average amount
of time the cell takes before it changes direction), can be related mathematically
to the parameters of the cell population assays, such as the random motility
coefficient (similar to a Brownian diffusion coefficient) and the chemotaxis
coefficient (the directed diffusion coefficient). One of the goals of this research
was to quantify this relationship using data obtained through literature searches
and data obtained from experiments conducted by the Vascular Research Laboratory
(VRL) of the University of Tennessee Graduate School of Medicine, Knoxville.
However, the needed data from the VRL has not yet been made available, making
it impossible to fully quantify the algebraic model for this relationship. It
is also believed that the receptors on the cell surface of VSMCs play a key role
not only in detecting but also in processing the information from the PDGF biochemical
gradient. The second goal of this research was to incorporate VSMC receptor mechanics
into a hybrid model (a combination of a discrete model for cellular migration
and a continuous model for biochemical diffusion) of VSMC migration driven by
chemoattractants. This was accomplished by writing a C++ code modeling the role
cell receptors play in the cellular response due to the effect of PDGF. The ultimate
goal of this research is to augment a hybrid cell migration model with receptor
mechanics to study the possible deleterious affects of balloon angioplasty and
the effects of hormone replacement therapy on the
outcome of this procedure.
Development of a Visualization Program Used in Computational Simulations of
Nanomaterials. JANA BLACK (University of Tennessee, Knoxville, TN,
37916) PETER CUMMINGS (Oak Ridge National Laboratory, Oak Ridge, TN,
37831)
Nanoscience offers many scientific
opportunities; it also poses significant experimental challenges since it deals
with matter in the size range of 1 to 100 nanometers. Theory and simulation are
crucial to nanoscience since experimental measurements and observations made
at the nanoscale are often impossible to interpret without a theoretical model.
Oak Ridge National Laboratory's (ORNL's) Center for Nanophase Materials Sciences
(CNMS), in particular the Nanomaterials Theory Institute (NTI), is involved extensively
in the development of programs and tools for nanoscale simulations at various
time and length scales. NTI maintains a high-performance visualization cluster
and 16-node visualization wall in addition to its multi-teraflop computational
clusters. The goal of this project is to develop a complex tool that can be used
to visualize, at high resolution, the trajectories obtained from various types
of molecular modeling such as ab initio, molecular dynamics, or Monte Carlo.
The specific data used as an example in this study is from molecular dynamics
simulations of pulling apart a gold nanowire. My role in the project is to write
a program to drive two major visualization packages which are already installed
on the NTI visualization clusters, VisIt and Visual Molecular Dynamics (VMD),
so that high-resolution animations can be created from the simulation trajectories.
VisIt is designed to visualize very large parallel data in the terascale range.
VMD is designed to visualize molecular biological systems. Neither program is
ideal for this project, but both encourage users to modify the source code and/or
write scripts so the program will better meet their needs. In this particular
study, it was considered best to run the visualization simultaneously with 16
copies of either VMD or VisIt, one per node, using 16 sets of simulation data
collected at various conditions. I have written scripts to synchronize them.
The scripts label the atoms according to their instantaneous temperatures and
vividly display the evolution of the system. The visualization helps to interpret
the physical process of pulling apart a gold nanowire at the molecular level.
This project serves as a trial step in the molecular visualization of complex
systems using the NTI facilities; it is one step toward the ultimate goal of
developing comprehensive simulation and animation tools of various stages at
CNMS to interpret/guide experimental efforts.
Development of an ASTM Graphite Oxidation Test Method. TYLER
GULDAN (The University of Tennessee, Knoxville, TN, 37996) TIMOTHY
D. BURCHELL (Oak Ridge National Laboratory, Oak Ridge, TN, 37831)
Graphite, one of the
three allotropes of carbon, is a very useful material because of its unique
chemical structure and properties such as mechanical strength, chemical inertness,
and electrical conductivity. In order to advance our knowledge of various
graphite brands, further research must be conducted to gain a greater insight
into the process and effects of oxidation on graphite properties. Although
the key processes and controlling elements of graphite oxidation have been
identified, the behavior of this material during and after oxidation is not
well established. Knowledge of this behavior is crucial in understanding
what happens to the various graphite components in nuclear reactors. Thermogravimetric
analysis in a vertical furnace of large samples of NBG-18 graphite at the
Oak Ridge National Laboratory (ORNL) has been used to characterize the oxidation
resistance of this material, and to increase the scientific understanding
of the relationship between the rate of oxidation and the flow rates of gases,
temperature, and the intrinsic reactivity of graphite. This helps to identify
the more oxidation resistant forms of graphite. In addition, comparative
analysis of data collected on other graphite materials has been conducted,
in order to identify a more expedient procedure for analysis of graphite
oxidation data. The information gathered from these experiments and calculations
is geared towards the development of an American Society for Testing and
Materials (ASTM) test method for the oxidation of graphite. More research
on all of the types of graphite is needed, but such results suggest that
the current ORNL procedure using the vertical tube furnace may become a reliable
ASTM test method.
Development of Integrated PV Reporting System. MARIANO
PADILLA (Fullerton College, Fullerton, CA, 0) WILLEM BLOKLAND (Oak
Ridge National Laboratory, Oak Ridge, TN, 37831)
The Spallation Neutron
Source (SNS) at Oak Ridge National Laboratory is a state of the art accelerator-based
neutron source. Neutron-scattering research helps develop new materials for
superconductors, magnets and plastics. SNS uses a hydrogen ion pulse beam to
bombard a mercury isotope target to produce the neutrons. Operators control
the accelerator complex by using console screens that can display and set Process
variables (PV) from the Input/Output Controller (IOC) devices. Reports on the
statistics of the accelerator operation are needed to evaluate the performance
of the accelerator. Providing time sensitive and accurate reports of the overall
health of the accelerator in an automated, efficient and intuitive manner is
an important necessity. The reporting system requirements are to provide an
intuitive multi-platform and web-browser based user interface, integration
with Oracle, e-mail systems and Portable Document Format (PDF) generation.
The reporting system provides the user with a web-based interface to setup
specific PVs to acquire, how to process, and how to publish the results. An
integrated reporting system is developed using PHP, Java, Javascript, Java
Server Pages (JSP) and Business Intelligence and Reporting Tools (BIRT) for
ECLIPSE Integrated Development Environment (IDE). The Oracle database already
in production use at SNS is the primary storage location for the data collected
from the PV’s at a rate up to 1Hz. The integrated reporting system will provide
physicists, operators and engineers with a simple platform to monitor, analyze,
and report on the operation of the SNS accelerator.
Effect of Chemistry Variations on the Microstructure and Mechanical Properties
of Creep Strength Enhanced Ferritic Steels. KEELY
WILSON (Michigan Technological University, Houghton, mi, 48128) JOHN
SHINGLEDECKER (Oak Ridge National Laboratory, Oak Ridge, TN, 37831)
Grades 91, 92, and 122
steels (9-12% Chromium) are known as Creep Strength Enhanced Ferritic steels.
These grades of steel are finding increased usage in the pressure retention
components of advanced fossil energy systems (Ultrasupercritical Steam Boilers,
Heat Recovery Steam Generators, etc.) because of their superior performance
in high temperature, high stress environments. The chemical specifications
for these grades are very broad, which may affect the mechanical properties
and long-term performance of the alloy in service. Ideally in the normalized
and tempered condition, Gr 91, 92, and 122, will have fully martensitic structures
with no ferrite forming. In an earlier study, two compositions of each grade
were produced by varying the amounts of austenite formers (C, Mn, Ni, N) and
ferrite formers (Si, Cr, Mo, V, Nb) within the current specification range.
These chemistry changes were guided by computational thermodynamics to alter
the intercritical temperatures, the temperatures at which steel changes phase,
and to cause the formation of ferrite under standard processing conditions.
In this study, the mechanical properties of these samples were evaluated, and
are compared to literature results for commercially produced material. High
temperature (650°C) creep tests were run with loads ranging from 100 to 140
MPa for times exceeding 1000 hours. Tensile tests were run at both high temperature
(650°C) and room temperature (25°C). Digital Imaging software was used to analyze
the steel microstructures to determine the amount of martensite and ferrite
present in each alloy. It was found that both the tensile strength and the
creep strength of the alloys decreased substantially with the presence of ferrite
in the material. This critical finding clearly shows that the specification
range for these alloys is too broad which may result in commercially produced
materials with properties far from expectations. A limited evaluation of thermodynamic
predictions and microstructural findings was also conducted. The data collected
in this study, combined with data from other tests, such as long term creep
tests, thermo-mechanical simulation, and thermodynamic modeling will later
be used to
create more specific standards for Gr 91, 92 and 122 alloys.
Effect of Oxygen Annealing on Substrates for Complex Oxide Film Growth. RYAN SMITH (Case Western Reserve University, Cleveland,
OH, 44106) HANS CHRISTEN (Oak Ridge National Laboratory, Oak Ridge, TN,
37831)
In this investigation, the
optimum annealing conditions (temperature and atmosphere) yielding atomically
flat surfaces on the crystalline material NdGaO3 were examined. This material
is used as substrate for thin-film pulsed laser deposition (PLD) of various complex
oxide films, including, for example, Yttrium Barium Copper Oxide (YBCO), a high-temperature
superconductor (HTSC) based on the perovskite crystal structure. Since their
discovery over 20 years ago, HTSCs have been thoroughly investigated because
they exhibit superconducting properties (zero resistance) above the boiling point
of liquid nitrogen (77 K). Thin films of these materials have shown improved
superconducting properties, which are highly dependant on the defect structure
of the film. Recently, new complex oxide substrates for YBCO deposition have
been investigated, including LSAT ((La,Sr)(Al,Ta)O3) and NdGaO3, because of their
similar thermal expansion coefficient, good dielectric properties, and small
lattice parameter mismatch with YBCO compared to traditional sapphire substrates.
Such a perovskite substrate with atomically flat terraced surface terminated
in regular unit-cell high steps is essential for high quality epitaxial YBCO
films with low or controllable defect density and optimal superconducting properties,
as well as for other metal-oxide films (ferroelectrics, colossal magnetoresistive
(CMR) materials, etc.). Perovskite-type ABO3 crystals with at least two cation
species, like NdGaO3, can terminate in
either “A-site” (AO)
or “B-site” (BO2) layers on the crystal surface. Unlike most substrates considered
for oxide film growth (e.g. SrTiO3), thermal annealing of NdGaO3 results in an
A-site layer termination. Studies of YBCO film deposition have shown that A-site
layer termination prevents the segregation of deleterious copper precipitates,
and thus such substrates are highly desirable for HTSC growth. Single crystal
(001) NdGaO3 substrates were thus annealed in air and oxygen, and the resulting
surface morphologies were investigated by atomic force microscopy (AFM). The
optimum annealing conditions for annealing were found to be 1100 °C for 1 hour
in an argon (or other inert gas) atmosphere, although annealing in air yields
acceptable results.
Elaboration on the Hexagonal Grid and Spiral Method for Data Collection via
Pole Figures. ANTHONY RIZZIE (Ball State University, Muncie, IN,
47306) THOMAS WATKINS (Oak Ridge National Laboratory, Oak Ridge,
TN, 37831)
A pole figure provides
a representation of the distribution of a particular set of atomic planes
for data acquired through diffraction and is used for analyzing crystallographic
texture or preferred orientation. Pole figures are constructed from a collection
of data points, each with a prescribed azimuthal angle (phi) and sample tilt
angle (chi) (as specified by the goniometer) and measured intensity (counts
or counts per
second). Traditionally, the Schulz
method (5°x5° grid) is employed to acquire the necessary data, but this leads
to a high concentration of data points for small chi values, low concentration
for large chi values, and consequently an inefficient use of time. Two alternative
data collection methods, the hexagonal grid and spiral, have been previously
proposed but only tersely documented in terms of both construction and implementation.
The goal, therefore, is to provide a practical description of the mathematics
required to implement the hexagonal and spiral data collection schemes. Applying
the concepts of equal area and stereographic projections and geometry, spreadsheets
were created to formulaically develop hexagonal and spiral grids, which are then
related to angular movements of the goniometer. Using the generated data points,
the hexagonal grid and spiral methods were programmed by “brute force” into the
existing x-ray software and employed to collect data for a sample of aluminum
foil. The resulting (111) pole figures compared favorably to typical rolling
textures for aluminum foil collected with the conventional Schulz method. The
hexagonal grid has been shown to reduce the number of data points and time needed
to complete a pole figure, while providing equal area sampling. The spiral method
was shown to use only a quarter as many data points as the 5° x 5° grid. In the
future, LabVIEW software will be utilized to develop programs for collecting
data using both the hexagonal grid and spiral methods and then convert the data
back to the conventional 5° x 5° grid.
Electrolysis of Saline for pH Control and Oxygen Production. ANNA BESMANN
(University of North Carolina at Asheville, Asheville, NC, 28804) ELI
GREENBAUM (Oak Ridge National Laboratory, Oak Ridge, TN, 37831)
Diabetic retinopathy is
a disease which causes small, fragile blood vessels to form within the retina
to
compensate for
the normal blood vessels’ inability to bring sufficient oxygen to the eye. These
blood vessels are prone to hemorrhaging in the eye, causing temporary or permanent
blindness. To help stop this problem before the small blood vessels can form,
electrodes can be implanted into the eye to stimulate the production of oxygen
in the vitreous humor. However, this also induces the formation of free chlorine,
which causes the vitreous humor to become more alkaline. In order to keep the
pH at a manageable level, an anode and a cathode can be implanted into the vitreous
humor while a second anode connected to both electrodes by a sidearm can be implanted
behind the ear. Protons will pass back and forth along the sidearm, keeping the
vitreous humor from becoming too acidic or too alkaline. Alternating between
both configurations keeps the pH stable, as the internal electrodes cause a rise
in pH while the sidearm electrode causes a drop in pH. In these experiments,
two electrodes were put into the buffered saline itself and a third electrode
into a glass sidearm filled with saline solution. To counter the problem of excessive
baseline pH shift, a 2 mM solution of phosphate buffered saline (PBS) was used
instead of pure saline. The solution was sparged at 25ml/minute and heated with
a water bath to 37°C to simulate the fluid motion in the vitreous humor and temperature
of the human body. A DC charge of 800 µA was applied to the electrodes to stimulate
the production of oxygen and a change in pH. The internal electrodes were used
in three minute increments until the pH had moved one pH unit above the baseline,
then the sidearm electrode was used in 1.5 minute increments to bring the pH
down 2 units. Afterward, the internal electrodes were used to bring the pH back
to the baseline. However, the exact amount of time needed to reach the acceptable
limits of high and low pH was variable, and on occasion use of the internal electrode
after using the sidearm electrode for a long period of time caused the pH to
drop for unknown reasons. The next step of this process would be to repeat the
experiment with a solution that is more like the vitreous humor of the eye, and
eventually move on to implanting
the electrodes within an actual eye.
Elevated atmospheric [CO2] concentrations
do not alter net nitrogen mineralization rates in a [CO2] enriched
sweetgum forest. CAITLIN
GUTHRIE (Pomona College, Claremont, CA, 91711) AIMEE T. CLASSEN (Oak
Ridge National Laboratory, Oak Ridge, TN, 37831)
Carbon dioxide concentrations
([CO2])
in the atmosphere have increased by 36% in the last 250 years. Previous research
has demonstrated that elevated levels of atmospheric [CO2]
can increase plant production. However, to maintain an increased level of growth,
trees must acquire higher levels of soil nutrients. Thus, nutrient availability
might ultimately constrain
the response of forests to elevated [CO2].
In particular, nitrogen (N) often limits plant production in terrestrial ecosystems,
and understanding
how soil N cycling responds to elevated [CO2]
in forests will enable scientists to make better predictions of how forests will
respond to climatic changes in the future. I took advantage of a long-term experiment
at Oak Ridge
National Laboratory (ORNL) manipulating atmospheric [CO2]
to test the prediction
that elevated [CO2] would decrease net N mineralization. Net N mineralization is
the amount of N that microbes have transformed from an organic form to an inorganic
form that is available to plants (minus the N taken up for use in microbial biosynthesis).
The ORNL, Free-Air [CO2] Enrichment (FACE) facility was constructed on a sweetgum plantation
planted in 1988. There are five 25-m rings (two elevated rings where the target
concentration is 550 ppm CO2, and three ambient rings) and the treatments have been running
since 1998. I inserted N mineralization soil cores into each of the rings in
June and July, 2007, and let them incubate for 30 days each. Results indicate
that there is no difference in net N mineralization rates, net N nitrification
rates, or leaching between elevated and ambient plots. However, there was a significant
decrease in net N mineralization rates for both treatments from June to July.
These results may indicate that increased forest production under elevated [CO2] has not altered the net amount of N available for tree uptake
at ORNL FACE. Alternatively, the lack of response to elevated [CO2],
and concurrent temporal response could reflect the low levels of precipitation
(the third lowest on record since 1895) observed over the course of this study.
More work is needed to illuminate
the effects of elevated [CO2]
on soil N cycling and
its effects on forest production at this site.
Energy, Carbon and Climate: Projections to 2025. ALISON
ERLENBACH (University of Florida, Gainesville, FL, 32601) T.J. BLASING
(Oak Ridge National Laboratory, Oak Ridge, TN, 37831)
Energy demands and associated
carbon emissions in the U.S. are expected to increase in the foreseeable future.
Policies to reduce fossil-fuel consumption and carbon emissions must consider
present and future energy needs, and fuels available to most economically meet
those needs, both of which show appreciable inter-regional differences. The National
Energy Modeling System (NEMS), a product of the Energy Information Administration
of the U.S. Department of Energy, projects this growth based on various economic
factors for the country as a whole, and within each of the nine census divisions
of the country. In this study, we summarized output from the NEMS for each census
division, including projected regional carbon emissions which we calculated based
on NEMS-projected energy statistics. To consider climate-change effects on energy
demand, we used the results of an earlier study in which a Parallel Climate Model-Integrate
BIosphere Simulator (PCM-IBIS) was used to drive the NEMS using different climate
change scenarios. Base-case (no climate change) projections show varying increases
in energy consumption and carbon emissions for each region, as their populations
increase at varying rates. Carbon emissions do not increase proportionately to
energy demands, but instead depend on the fuel types each region uses, and is
projected to use, as well as the proportion of energy supplied by electricity.
Electric generation is inherently an inefficient use of thermal energy; only
about one third of the thermal energy produced can be converted to electricity.
The remainder is identified as "electricity-related
loss" in the NEMS. Approximately 20% of U.S. carbon dioxide emissions result
from this "lost" thermal energy. Effects of simulated climate warming,
compared to the base case, were to decrease national energy demand. However,
projected carbon emissions increased because reduced carbon from heating was
outweighed by the increase in carbon emissions for electricity used for cooling.
Regional carbon emissions increased at varying rates, being heavily dependent
on the fraction of energy that is electricity and on the fuel types used to generate
electricity. Policies to mitigate carbon emissions should consider regional differences
in projected demands and in economically available fuels, as well as differences
in regional potentials of renewable energy sources and of technologies that reduce
wasted thermal energy.
Enhancing Network Security by a Centralized and Standardized Dynamic Event
Log Data Collection Method. MARK SEAL (Walters State
Community College, Morristown, TN, 37813) DON WILLIAMS (Oak Ridge National
Laboratory, Oak Ridge, TN, 37831)
Event logs are at the core
of network security. Without the tracking and logging ability that event logs
allow, there
would be no accountability of the security of the network. The logs allow the
detection of worms and viruses via monitoring system resources and processes,
detection of port scans by monitoring the dropped port requests by the firewall,
detection of brute force password cracking by the number of failed login events,
and the ability to start a trace on the agent when a security event is recorded.
It is imperative that the logs from each machine are parsed and the relevant
information passed on to a central log server (syslog) where the information
can be analyzed and trend analysis preformed. The problem faced is that Windows
does not have a single log that collects all of the required data; instead the
data must be collected in segments. In addition, both XP and Vista are both being
used as operating systems. Each of these OS’s has different ways of storing the
logs, requiring different data collection methods. XP uses evt format as the
logging method while Vista uses an evtx format. XP logs may be ported to the
syslog server while Vista requires that either an event viewer or a data collection
program (e.g. LogParser) be used. The development of the new Windows event log
data collection protocol centers around three core concepts: scalability, control,
uniformity. The chosen method of collection of data by using Powershell scripts
meets all three core concepts. Powershell may be installed on both XP and Vista
machines, while coming mounted on the upcoming Window Server 2008. Scripting
in Powershell allows for the full control of the event log data. The data can
be parsed by content as well as being stripped of superfluous data for storage
and trending in the syslog server. In addition, the data will be supplied to
the syslog in real-time, allowing for real-time trend analysis and alerting protocols.
Powershell scripting also creates a uniform event log data collection protocol
as that Linux system logs are parsed by scripts. Powershell, which is based on
the Korn Shell model, will be easier for cyber security to modify and maintain
the core scripting code. This project will increase the security of the network
by allowing for data collection of the system logs of Windows machines while
decreasing the response time of the cyber-security team by allowing for real-time
data comparison between Linux and Window machines.
Evaluation of Technologies for Protected Asset Management. BEN PETERS
(Maryville College, Maryville, TN, 37830) CHRIS A. PICKETT (Oak Ridge
National Laboratory, Oak Ridge, TN, 37831)
Protected asset management
is a valuable concept that incorporates rigorous accountability and various
layers of security. Both of these aspects are necessary to create a robust
protected asset management system (PAMS). Radio frequency identification (RFID)
tags were tested for basic accountability purposes, and seals were tested for
asset security. The RFID tag system tested for accountability was based on
an IEEE standard called RuBee. The RuBee system uses a low frequency RF-tag,
antenna, and reader to aid in locating and tracking assets. Multiple RuBee
antenna designs and sizes were tested to determine the best configuration for
monitoring assets in a room. The best design appeared to be a single-loop antenna
that consisted of three connected coils. To test this configuration tags were
placed in the
antenna’s field to check whether the tag was seen in various positions throughout
the room. Preliminary results indicate that this antenna design adequately detects
tags throughout the entire area and could possibly be used in the future as a
piece of an effective PAMS. The security aspect of a PAMS was tested using Russian
rope seals. This seal consists of a seal body, metal connecting rope, and a plastic
optical insert that possesses a serial number that is read and stored by an automatic
seal identifier. A test group of ten seals was used to determine the ease of
use, time for set-up, and overall performance of the seals. These seals were
first assembled and attached to a metal storage drum. They were then stored in
the automatic seal identifier’s memory and checked three times daily. Some design
issues with the seal body and plastic optical insert need to be resolved before
the seals are actually used in the field. More testing needs to be conducted
in order to develop more specific recommendations for the improvement of both
systems and to determine their possible uses in protected asset management.
Event Based NeXus Files. WESLEY KENDALL (University
of Tennessee, Knoxville, TN, 37849) PETER PETERSON (Oak Ridge National
Laboratory, Oak Ridge, TN, 37831)
When gathering data from
instruments across different locations, a universal file format for representing
the data
becomes essential. The NeXus format is a standard for representing raw data.
My project involves writing a program to convert neutron event files to the standard
NeXus format. The main resource to write this software is the NeXus Application
Programming Interface (API). The API includes many functions for reading and
writing data in the NeXus format. Currently, raw binary neutron event data is
automatically converted into histogrammed NeXus files. This locks the scientist
into a particular choice of histogramming parameters for the data. If the scientist
wishes to perform a histogram parameter data analysis scan to find the optimal
settings, a new histogram file for each parameter set needs to be generated before
data analysis can proceed. An event NeXus file will allow a single file to become
the source for each set in the parameter data analysis scan. Space will be significantly
reduced since the original raw binary neutron data and its associated metadata
will be duplicated in the event NeXus files. My program converts the raw binary
neutron event data into event based NeXus files enabling the previously described
flexibility. The following details further illustrate how my program operates.
First, it reads in a neutron event file, which consists of pixel identification
(id) numbers and pixel time of flight values. Since some detectors have different
electrical set ups, the pixel id numbers will often have to be mapped to other
numbers to closer match the physical detector layout. After the pixel id numbers
are mapped to the appropriate number, the program then reads in a pulse id file.
The file gives the exact starting times of a pulse. Adding the time of flight
value of a pixel id with the corresponding pulse time gives the exact clock time
of the neutron event in nanoseconds. This allows for analysis of different time
slices of data. After all the steps are completed, the event based NeXus file
is created. The data can then be analyzed by scientific software that is specifically
made to handle the NeXus format,
making analysis much more efficient.
Flocking-based Document Clustering on the Graphics Processing Unit. JESSE ST.CHARLES (University of Tennessee at Chattanooga,
Chattanooga, TN, 37415) XIAOHUI CUI (Oak Ridge National Laboratory, Oak
Ridge, TN, 37831)
Analyzing and grouping documents
by content is a complex problem. One explored method of solving this problem
borrows
from nature, imitating the flocking behavior of birds. Each bird represents a
single document and flies toward other documents that are similar to it. One
limitation of this method of document clustering is its complexity O(n2). As
the number of documents grows, it becomes increasingly difficult to receive results
in a reasonable amount of time. However, flocking behavior, along with most naturally
inspired algorithms such as ant colony optimization and particle swarm optimization,
are highly parallel and have found increased performance on expensive cluster
computers. In the last few years, the graphics processing unit (GPU) has received
attention for its ability to solve highly-parallel and semi-parallel problems
much faster than the traditional sequential processor. Some applications see
a huge increase in performance on this new platform. The cost of these high-performance
devices is also marginal when compared with the price of cluster machines. In
this paper, we have conducted research to exploit this architecture and apply
its strengths to the document flocking problem. Our results highlight the potential
benefit the GPU brings to all naturally inspired algorithms. Using the CUDA platform
from NIVIDA®, we developed a document flocking implementation to be run on the
NIVIDA® GEFORCE 8800. Additionally, we developed a similar but sequential implementation
of the same algorithm to be run on a desktop CPU. We tested the performance of
each on groups of news articles ranging in size from 200 to 3000 documents. The
results of these tests were very significant. Performance gains ranged from three
to nearly five times improvement of the GPU over the CPU implementation. This
dramatic improvement in runtime makes the GPU a potentially revolutionary platform
for document clustering algorithms.
Heat-Reflective Paint for Deck Surfaces of Naval Vessels. EMILY
OTTENWELLER (University of St. Francis, Fort Wayne, IN, 46808) RICK
LOWDEN (Oak Ridge National Laboratory, Oak Ridge, TN, 37831)
The new V-22 Osprey aircraft
has the capability to vertically take off from and land on the deck of an
aircraft carrier. During take off and landing, the hot exhaust from the Osprey
aircraft engines impinges directly onto the deck of the ship. The deck surfaces
were not designed to handle high temperatures and thus warp from the excess
heat. Insulating paints that use special ceramic additives have been developed
to improve the energy efficiency of buildings and structures. The decks of
naval vessels are coated with paints that include ceramic grit to make them
non-skid. It was hypothesized that the insulating additives could be used
to replace the non-skid grit and create a paint that could protect the deck
from the hot exhaust. Ceramic particles were added to an epoxy-based surface
coating to alter the layer’s thermal properties, i.e. to reflect, absorb
or conduct heat. The ceramic additives include Bionic Bubbles which are hollow
microspheres derived from fly ash, Insuladd particles which are hollow ceramic
mircospheres invented by NASA, and silicon carbide platelets. The test specimens
were ˝ inch thick steel plates to which paints with different additives were
applied. The plates were heated using a heat gun to simulate the exhaust
of the aircraft and temperature distributions on the backside of the painted
specimens were measured. The temperature distributions for the plates coated
using paints with additives were compared to results for bare metal, paint
with no additive, and the standard non-skid deck coating. The plate with
the highest concentration of Bionic Bubbles was the most effective in reducing
the temperature of the plate; however, the layer is likely too fragile for
the application. The deck coating must not only be insulating but also robust
and non-skid. It appears that the ceramic additives will need to be modified
to best suit the needs of this application.
Heavy Truck Duty Cycle Data Collection. FIONA
DUNNE (University of California, Santa Barbara, Santa Barbara, CA,
93106) GARY CAPPS (Oak Ridge National Laboratory, Oak Ridge, TN, 37831)
Real-world data on Class-8
truck operation is necessary for fuel efficiency studies as well as for use
in vehicle powertrain design software. To gather this data, six Class-8 trucks
were instrumented with a data acquisition system (DAS) and a set of sensors
to monitor numerous vehicle performance parameters from engine to tires, as
well as weather conditions, road slope, and load weight over a one year period.
First, the truck's J1939 vehicle network was tested to learn what vehicle performance
information was available on it, and how to retrieve the data of interest.
The other sensors and DAS were then installed on each truck, and all data was
recorded to the DAS as the trucks then continued in regular operation. During
operation, data was checked weekly for errors to determine whether the equipment
was functioning correctly. By checking the data, it was discovered that weather
sensors began failing from water entry due to unexpected pressure washing of
the trucks. Load weight data was found to be inaccurate, as truck drivers had
not correctly calibrated the weighing system. Road slope and vehicle network
data results were as expected. It was concluded that weather sensors should
be covered during pressure washing, and an alternative method for calibrating
the weighing system was devised. It was also concluded that the method used
to obtain road slope, a derivation from GPS vertical and ground velocity data,
was adequate. Finally, it was determined that no changes needed to be made
in the method of communication with the vehicle network. Data will continue
to be checked for errors throughout the remainder of the one year test, and
changes
will be made as necessary.
Hydrodynamics of a Centrifugal Contactor. MEECKRAL
WILLIAMS (Prairie View A&M University, Prairie View, TX, 77446)
DR. COSTAS TSOURIS (Oak Ridge National Laboratory, Oak Ridge, TN,
37831)
Countries producing
nuclear energy have an interest in nuclear fuel reprocessing, a chemical
procedure that extracts fissile materials such as uranium-233, uranium-235,
and plutonium-239 from fission products and other materials in the spent
nuclear reactor fuels. The goal is to recycle materials that are useful
for further nuclear energy production. Centrifugal contactors are used
in many plants for the reprocessing of fissile materials. By the use of
centrifugal force, the contactor has the advantages of intensive mixing,
rapid phase separation, and chemical separation by liquid-liquid extraction
in a single unit operation. Two immiscible fluids of different densities,
usually an aqueous and an organic fluid, are fed into the contactor to
obtain two-phase mixing and extraction. The objective of this work is to
determine flow patterns and dispersion properties, such as drop size distributions,
in a four-inch diameter centrifugal contactor. The two fluids used here
are water and dodecane at flow rate ratios ranging between 1:5 and 5:1.
The total flow rate is on the order of 600 mL/min, and the agitation speed
is up to 3600 rotations per minute. Once the dispersion is formed, a sample
is taken into a light scattering cell where cetyl trimethyl ammonium bromide
(CTAB) solution is initially located. The CTAB is a surfactant that stabilizes
the droplets to prevent coalescence. Results of particle size measurements
obtained by the LS130 light scattering instrument from Coulter have shown
that only small droplets can be measured by this method because large drops
escape fast to the top of the cell due to buoyancy, even though the sample
in the cell is stirred. Video photography using a camera that operates
at fast shutter speed and frame recording was employed to visually observe
the dispersion in the contactor through an optically transparent wall.
Video images reveal details of the drop size, air bubble entrainment, and
flow dynamics of the mixing zone. Video imaging has the advantage of direct
visualization of the droplets; however, the disadvantage is that it is
difficult to distinguish bubbles from droplets. It is hypothesized that,
because the difference in the refractive index is greater for air and water
or dodecane than for water and dodecane, air bubbles appear sharper on
the video images. Drop size measurements are obtained from the images through
a size calibration procedure. The size of
drops ranges between 1µm and 500 µm.
Imaging Diagnostic Systems for the Spallation Neutron Source. KATHLEEN
GOETZ (Middlebury College, Middlebury, VT, 5753) TOM SHEA (Oak Ridge
National Laboratory, Oak Ridge, TN, 37831)
Since the start of commissioning,
imaging beam diagnostics have been utilized widely at the Spallation Neutron
Source (SNS) as quick intuitive diagnostic measures and for the calibration
of other diagnostic instrumentation. Because other imaging systems such as
the Video Foil Monitor proved indispensable, there was a drive to create
new systems such as the temporary Target Viewscreen (TVS) and the Small Angle
Neutron Scattering (SANS) Neutron Beam Stop Monitor (NBSM). My work on the
TVS was performed over 3 semesters,
with this summer’s focus being on system documentation. Although the temporary
TVS, a system that my mentor and I designed and implemented, has already served
its purpose and has been decommissioned, my work on the project continues in
the form of a paper and presentation at the International Accelerator Applications
conference that was at the end of July 2007. I am also part of a team that is
working on plans for a second generation Target Viewscreen to be implemented
next year. The NBSM is a new project with initial design work to be completed
by the end of August 2007. Earlier this summer, I performed calculations to estimate
the light that will be collected by the second generation TVS and NBSM optics.
Presently, my work on the NBSM includes an as yet to be completed experiment
at HFIR to look into the types of optics required for a successful system. I
am also currently designing the experimental
set up.
Implementing Optimized and Scalable Non-Standard Matrix-Multiply Algorithms. RANDY HASSELL JR. (Old Dominion University, Norfolk,
VA, 23455) RICHARD BARRETT (Oak Ridge National Laboratory, Oak Ridge,
TN, 37831)
Matrix-Multiplication is
the fundamental operation for solving several algorithms including other linear
algebra operations like matrix inversion, systems of linear equations, and
matrix determinants.
It’s also used in computer graphics and digital signal processing. The Computational
Materials Science Group at the Oak Ridge National Laboratory (ORNL) is developing
a large-scale computer application that studies the fundamental properties of
materials. The performance of this materials science code relies heavily upon
the execution of matrix-multiplication. The dimension of the matrices are 32
x N, where N is currently 4K, and continues to expand to 40K. The purpose of
this project is to create an optimal algorithm that performs matrix-multiplication,
and to research the implem |