Conley: Computing connection matrices in Maple

In this work we announce the Maple package conley to compute connection and C-connection matrices. conley is based on our abstract homological algebra package homalg. We emphasize that the notion of braids is irrelevant for the definition and for the computation of such matrices. We introduce the notion of triangles that suffices to state the definition of (C)-connection matrices. The notion of octahedra, which is equivalent to that of braids is also introduced.Comment: conley is based on the package homalg: math.AC/0701146, corrected the false "counter example

Differences in silica content between marine and freshwater diatoms

Peer Reviewedhttp://deepblue.lib.umich.edu/bitstream/2027.42/109821/1/lno19893410205.pd

Vesivirus 2117 capsids more closely resemble sapovirus and lagovirus particles than other known vesivirus structures

Vesivirus 2117 is an adventitious agent that in 2009, was identified as a contaminant of CHO cells propagated in bioreactors at a pharmaceutical manufacturing plant belonging to Genzyme. The consequent interruption in supply of Fabrazyme and Cerezyme (drugs used to treat Fabry and Gaucher disease respectively), caused significant economic losses. Vesivirus 2117 is a member of the Caliciviridae; a family of small icosahedral viruses encoding a positive sense RNA genome. We have used cryo-electron microscopy and three dimensional image reconstruction to calculate a structure of vesivirus 2117 virus like particles as well as feline calicivirus and a chimeric sapovirus. We present a structural comparison of several members of the Caliciviridae, showing that the distal P domain of vesivirus 2117 is morphologically distinct from that seen in other known vesivirus structures. Furthermore, at intermediate resolutions we found a high level of structural similarity between vesivirus 2117 and Caliciviridae from other genera, such as sapovirus and rabbit haemorrhagic disease virus. Phylogenetic analysis confirms vesivirus 2117 as a vesivirus closely related to canine vesiviruses. We postulate that morphological differences in virion structure seen between vesivirus clades may reflect differences in receptor usage

Measuring Ejecta Velocity Improves Type Ia Supernova Distances

We use a sample of 121 spectroscopically normal Type Ia supernovae (SNe Ia) to show that their intrinsic color is correlated with their ejecta velocity, as measured from the blueshift of the Si II 6355 feature near maximum brightness, v_Si. The SN Ia sample was originally used by Wang et al. (2009) to show that the relationship between color excess and peak magnitude, which in the absence of intrinsic color differences describes a reddening law, was different for two subsamples split by v_Si (defined as "Normal" and "High-Velocity"). We verify this result, but find that the two subsamples have the same reddening law when extremely reddened events (E(B-V) > 0.35 mag) are excluded. We also show that (1) the High-Velocity subsample is offset by ~0.06 mag to the red from the Normal subsample in the (B_max - V_max) - M_V plane, (2) the B_max - V_max cumulative distribution functions of the two subsamples have nearly identical shapes, but the High-Velocity subsample is offset by ~0.07 mag to the red in B_max - V_max, and (3) the bluest High-Velocity SNe Ia are ~0.10 mag redder than the bluest Normal SNe Ia. Together, this evidence indicates a difference in intrinsic color for the subsamples. Accounting for this intrinsic color difference reduces the scatter in Hubble residuals from 0.190 mag to 0.130 mag for SNe Ia with A_V < 0.7 mag. The scatter can be further reduced to 0.109 mag by exclusively using SNe Ia from the Normal subsample. Additionally, this result can at least partially explain the anomalously low values of R_V found in large SN Ia samples. We explain the correlation between ejecta velocity and color as increased line blanketing in the High-Velocity SNe Ia, causing them to become redder. We discuss some implications of this result, and stress the importance of spectroscopy for future SN Ia cosmology surveys, with particular focus on the design of WFIRST.Comment: 9 pages, 8 figures, submitted to Ap

Experimental Investigations of Micro Rotor-Tip Vortices

The focus of this project is to run a micro-rotor at varying RPMs, analyzing the flow underneath the blades and above the ground based on flow visualization. This study is related to the understanding of the factors affecting the stability and performance of a rotorcraft. A variety of factors are manipulated, which includes the RPM, blade angle of attack, and ground effect presence. The investigation involves using Planar Laser Imaging where a laser is directed into a test chamber (in our case, the test chamber is filled with smoke) and is matched with a high-speed camera to capture flow visualizations in a non-intrusive, relatively simple manner. Our data primarily consists of flow field velocity measurements, force measurements, and flow field visualization. The flow visualization and velocity data were obtained via the high-speed camera and an accompanying laser system that passed through a diverging lens to illuminate the smoke. Particle Image Velocimetry (PIV) has been performed on the rotor wake, and the preliminary flow field analysis is also presented. Current activities include torque measurements and PIV at varying angles

REPEATABILITY OF MORPHOLOGICAL CHANGE ON A SANDY BEACH ACROSS MULTIPLE TIMESCALES

The swash zone is a highly dynamic region of the nearshore in terms of both hydro- and sediment dynamics. Previous work has demonstrated that the majority of swash events transport only small amounts of sediment and net beachface volume change over several hours tends to be small. However, a small number of individual swash events can deposit or remove hundreds of kilograms of sediment per metre width of beach. These events are typically associated with swash flows that involve one or more highly turbulent swash-swash interactions, causing enhanced suspension and transport of sediment (Blenkinsopp et al. 2011). The timing and location of these interactions is complex and small changes in either can lead to very different local flow conditions. The complexity of these flows make sediment transport prediction on a swash-by-swash basis very challenging, and raises the question whether deterministic physical and numerical modelling of swash sediment transport is warranted. </jats:p

Performance of a dynamic cobble berm revetment for coastal protection, under increasing water level.

In a changing climate, sea level rise and projected regional-scale changes in storminess may increase the vulnerability of sandy coastlines to coastal erosion and flooding. As a result, there is increased interest in the development of adaptable, sustainable and effective coastal protection measures to protect these highly variable sandy coastlines. One such example is a dynamic cobble berm revetment; a "soft-engineering" solution (i.e., not fixed) consisting of a cobble berm constructed around the high tide wave runup limit, that has the potential to stabilise the upper beach, provide overtopping protection to the hinterland and translate with water level rise. However, there have been limited applications of dynamic cobble berm revetments to date, and there is a lack of understanding about the efficacy of this coastal protection to current and changing waves and water levels. This study details a prototype-scale experiment conducted to test the behaviour and performance of a dynamic cobble berm revetment as a form of coastal protection against erosive waves and water level increase. Results from the experiment showed that the revetment was "dynamically stable" under wave action as a consistent global shape was retained even though individual cobbles were mobilised under every swash event. Although the front slope and the crest responded to the incident wave condition, the net rate of change was always an order of magnitude lower than the gross rate of change. Tracking of individual cobbles using Radio Frequency Identification (RFID) technology showed that stability of the revetment was likely maintained by rollover transport of cobbles onto the crest, as the revetment moved upward and landward under water level rise. The presence of the revetment reduced the vertical and horizontal runup as well as the retreat of the upper beach. The experimental results presented suggest that a dynamic cobble berm revetment could be a cheap, efficient and low environmental impact engineering solution for protecting sandy coastlines in a changing climate. Some preliminary design guidelines for coastal engineers are also drawn from this experiment