Visual Occam: High level visualization and design of process networks

With networks, multiprocessors, and multi-threaded systems becoming more common in our world it is increasingly evident that concurrent programming is not something to be ignored or marginalized even though many takes on concurrency (mainly by means of monitors or shared resources) have proven to be difficult to deal with on large scales. Thankfully, a good deal of work has already been done to combat this, through CSP, occam, and other such derivatives, to produce a scalable process oriented paradigm. Still, it is cumbersome to attempt to deal with the intricacies of such communicating networks down to every minutia; if, instead, it was possible to manage communicating elements on a higher level it would be far more practical to design large scale networks of processes! As such, Visual Occam has been designed to automate some of the inner workings of occam to allow any user (novice or otherwise) the ability to create complex networks of communicating processes through easy to understand user interactions and interfaces. Taking a number of cues from digital circuit design software and modern integrated development environments, it is possible to select components (both predefined and arbitrarily complex user created systems) from a library of objects, hook them together in a network, and produce compilable code without having to worry about how or why the chosen components perform their function. Since any of these components may themselves be networks of processes, it becomes trivial to construct large systems that would otherwise be unwieldy to put together by hand. The end result? A high level, easy to understand, visual abstraction of those concurrent networks previously so frustrating to develop

Initial condition for hydrodynamics, partonic free streaming, and the uniform description of soft observables at RHIC

We investigate the role of the initial condition used for the hydrodynamic evolution of the system formed in ultra-relativistic heavy-ion collisions and find that an appropriate choice motivated by the models of early-stage dynamics, specifically a simple two-dimensional Gaussian profile, leads to a uniform description of soft observables measured in the Relativistic Heavy-Ion Collider (RHIC). In particular, the transverse-momentum spectra, the elliptic-flow, and the Hanbury-Brown--Twiss correlation radii, including the ratio R_out/R_side as well as the dependence of the radii on the azimuthal angle (azHBT), are properly described. We use the perfect-fluid hydrodynamics with a realistic equation of state based on lattice calculations and the hadronic gas at high and low temperatures, respectively. We also show that the inclusion of the partonic free-streaming in the early stage allows to delay the start of the hydrodynamical description to comfortable times of the order of 1 fm/c. Free streaming broadens the initial energy-density profile, but generates the initial transverse and elliptic flow. The data may be described equally well when the hydrodynamics is started early, or with a delay due to partonic free-streaming.Comment: 4 pages, 4 figure

Free-streaming approximation in early dynamics of relativistic heavy-ion collisions

We investigate an approximation to early dynamics in relativistic heavy-ion collisions, where after formation the partons are free streaming and around the proper time of 1 fm/c undergo a sudden equilibration described in terms of the Landau matching condition. We discuss physical and formal aspects of this approach. In particular, we show that initial azimuthally asymmetric transverse flow develops for non-central collisions as a consequence of the sudden equilibration. Moreover, the energy-momentum tensor from the free-streaming stage matches very smoothly to the form used in the transverse hydrodynamics, whereas matching to isotropic hydrodynamics requires a more pronounced change in the energy-momentum tensor. After the hydrodynamic phase statistical hadronization is carried out with the help of THERMINATOR. The physical results for the transverse-momentum spectra, the elliptic-flow, and the Hanbury-Brown--Twiss correlation radii, including the ratio R_out/R_side as well as the dependence of the radii on the azimuthal angle (azHBT), are properly described within our approach. The agreement is equally good for a purely hydrodynamic evolution started at an early proper time of 0.25 fm/c, or for the free streaming started at that time, followed by the sudden equilibration at tau ~1 fm/c and then by perfect hydrodynamics. Thus, the inclusion of free streaming allows us to delay the start of hydrodynamics to more realistic times of the order of 1 fm/c.Comment: 10 pages, 12 figure

Functional consequences of Palaeozoic reef collapse

Biogenic reefs have been hotspots of biodiversity and evolutionary novelty throughout the Phanerozoic. The largest reef systems in Earth’s history occurred in the Devonian period, but collapsed during the Late Devonian Mass Extinction. However, the consequences for the functional diversity of Palaeozoic reefs have received little attention. Here, we examine changes in the functional diversity of tabulate coral assemblages over a 35 million year period from the middle Devonian to the Carboniferous, straddling the multiphase extinction event to identify the causes and ecological consequences of the extinction for tabulate corals. By examining five key morphological traits, we show a divergent response of taxonomic and functional diversity to the mass extinction: taxonomic richness peaked during the Givetian (~ 388–383 Ma) and coincided with peak reef building, but functional diversity was only moderate because many species had very similar trait combinations. The collapse of taxonomic diversity and reef building in the late Devonian had minimal impact on functional richness of coral assemblages. However, non-random shifts towards species with larger corallites and lower colony integration suggest a shift from photosymbiotic to asymbiotic taxa associated over the study period. Our results suggest that the collapse of the huge Devonian reef systems was correlated with a breakdown of photosymbiosis and extinction of photosymbiotic tabulate coral taxa. Despite the appearance of new tabulate coral species over the next 35 million years, the extinction of taxa with photosymbiotic traits had long-lasting consequences for reef building and, by extension, shallow marine ecosystems in the Palaeozoic

Blood flow rate estimation in optic disc capillaries and vessels using Doppler optical coherence tomography with 3D fast phase unwrapping

The retinal volumetric flow rate contains useful information not only for ophthalmology but also for the diagnosis of common civilization diseases such as diabetes, Alzheimer's disease, or cerebrovascular diseases. Non-invasive optical methods for quantitative flow assessment, such as Doppler optical coherence tomography (OCT), have certain limitations. One is the phase wrapping that makes simultaneous calculations of the flow in all human retinal vessels impossible due to a very large span of flow velocities. We demonstrate that three-dimensional Doppler OCT combined with three-dimensional four Fourier transform fast phase unwrapping (3D 4FT FPU) allows for the calculation of the volumetric blood flow rate in real-time by the implementation of the algorithms in a graphics processing unit (GPU). The additive character of the flow at the furcations is proven using a microfluidic device with controlled flow rates as well as in the retinal veins bifurcations imaged in the optic disc area of five healthy volunteers. We show values of blood flow rates calculated for retinal capillaries and vessels with diameters in the range of 12-150 µm. The potential of quantitative measurement of retinal blood flow volume includes noninvasive detection of carotid artery stenosis or occlusion, measuring vascular reactivity and evaluation of vessel wall stiffness

Bˉ→Xsγ\bar{B}\to X_s \gamma in the Two Higgs Doublet Model up to Next-to-Next-to-Leading Order in QCD

We compute three-loop matching corrections to the Wilson coefficients $C_7$ and $C_8$ in the Two Higgs Doublet Model by applying expansions for small, intermediate and large charged Higgs boson masses. The results are used to evaluate the branching ratio of $\bar{B}\to X_s \gamma$ to next-to-next-to leading order accuracy, and to determine an updated lower limit on the charged Higgs boson mass. We find \mhplus \ge 380 GeV at 95% confidence level when the recently completed BABAR data analysis is taken into account. Our results for the charged Higgs contribution to the branching ratio exhibit considerably weaker sensitivity to the matching scale $\mu_0$, as compared to previous calculations.Comment: 20 pages, 15 figures; v2: minor modifications, matches published version in JHE

Subsampling impact on the climate change signal over poland based on simulations from statistical and dynamical downscaling

Most impact studies using downscaled climate data as input assume that the selection of few global climate models (GCMs) representing the largest spread covers the likely range of future changes. This study shows that including more GCMs can result in a very different behavior. We tested the influence of selecting various subsets of GCMs on the climate change signal over Poland from simulations based on dynamical and empirical-statistical downscaling methods. When the climate variable is well simulated by the GCM, such as temperature, results showed that both downscaling methods agree on a warming over Poland by up to 2° or 5°C assuming intermediate or high emission scenarios, respectively, by 2071-2100. As a less robust simulated signal through GCMs, precipitation is expected to increase by up to 10% by 2071-2100 assuming the intermediate emission scenario. However, these changes are uncertain when the high emission scenario and the end of the twenty-first century are of interest. Further, an additional bootstrap test revealed an underestimation in the warming rate varying from 0.5° to more than 4°C over Poland that was found to be largely influenced by the selection of few driving GCMs instead of considering the full range of possible climate model outlooks. Furthermore, we found that differences between various combinations of small subsets from the GCM ensemble of opportunities can be as large as the climate change signal. © 2019 American Meteorological Society

Front Form Spinors in Weinberg-Soper Formalism and Melosh Transformations for any Spin

Using the Weinberg-Soper formalism we construct the front form $(j,0)\oplus(0,j)$ spinors. Explicit expressions for the generalised Melosh transformations up to spin two are obtained. The formalism, without explicitly invoking any wave equations, reproduces spin one half front-form results of Melosh, Lepage and Brodsky, and Dziembowski.Comment: 16 Pages, RevTex. We continue to receive reprint requests for this paper. So we now archive it her

Development and validation of novel PCR primers for identification of plasmid-mediated colistin resistance (mcr) genes in various environmental settings

Antibiotic resistance is considered one of the biggest threats to public health and has become a major concern for governments and international organizations. Combating this problem starts with improving global surveillance of antibiotic resistance genes (ARGs) and applying standardized protocols, both in a clinical and environmental context, in agreement with the One Health approach. Exceptional efforts should be directed to controlling ARGs conferring resistance to Critically Important Antimicrobials (CIA). In this study, a systematic literature review to synthesize data on the identification of mcr genes using a PCR technique was performed. Additionally, a novel set of PCR primers for mcr-1 – mcr-9 genes detection was proposed. The developed primers were in silico and experimentally validated by comparison with mcr-specific PCR primers reported in the literature. This validation, besides being a proof-of-concept for primers’ usefulness, provided insight into the distribution of mcr genes in municipal wastewater, clay and river sediments, glacier moraine, manure, seagulls and auks feces and daphnids from four countries. This analysis proved that commonly used primers may deliver false results, and some mcr genes may be overlooked in tested samples. Newly-developed PCR primers turned out to be relevant for the screening of mcr genes in various environments.info:eu-repo/semantics/publishedVersio