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Approaches to Static Digestion Models
PublicationIt is not possible to look in detail at the wide range of static digestion methods that have been used to date. However, this section looks at some of the general approaches that have been used to look at the digestion of various nutrients and bioactives. I have focussed on the two main nutrients that undergo digestion in the upper GI tract, namely protein and lipid. In the case of protein, the research has largely been driven...
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How do sterols determine the antufungal activitiy of amphotericin B? Free energy of binding between the drug and its membrane targets.
PublicationAmphotericin B (AmB) is a well-known polyene antibiotic used to treat systemic fungal infections. It is commonly accepted that the presence of sterols in the membrane is essential for the AmB biological activity, that is, for the formation of transmembrane ion channels. The selective toxicity of AmB for fungal cells is attributed to the fact that it is more potent against fungal cell membranes containing ergosterol than against...
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Thermodynamics aspects of interactions between acridine derivatives and DNA
PublicationDNA is a molecular target for many anticancer and antiviral drugs. Therefore, a clear understanding of the interaction of small molecules with DNA is important in the rational design of ligands that can bind to DNA with high affinity and selectivity. There are several methods to investigate interactions between drug and DNA. Some of them measure changing into DNA structures, such as lengthening and untwisting of helix of DNA. Other...
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The dispersive micro-solid phase extraction method for MS-based lipidomics of human breast milk*
PublicationA simple and rapid microextraction method ensuring high lipidome coverage was developed for liquid chromatography mass spectrometry (LC-MS)-based lipidomics of human breast milk. The dispersive microsolid phase extraction (D-µ-SPE) technique, coupled with the design of experiment (DoE) method, enabled the study of the influence of several conditions (desorption solvent, stationary phase ratio, and sorption and desorption time)...
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Understanding the early-stage release of volatile organic compounds from rapeseed oil during deep-frying of tubers by targeted and omics-inspired approaches using PTR-MS and gas chromatography
PublicationDuring deep-frying, a plethora of volatile products is emitted with the fumes. These compounds could act as oil quality indicators and change the indoor air composition leading to health risks for occupants. The presented experiments focus on deep-frying of different tubers in rapeseed oil at different frying temperatures. Here, two scenarios for real-time monitoring of volatile organic compounds (VOCs) using proton transfer reaction...
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Dobór usług WWW w środowisku SOA
PublicationPrzedstawiono nowy sposób doboru usług poprzez heurystyczną ocenęprzydatności ich atrybutów. Zaprezentowano algorytm doboru oraz siećneuronową jako sposób oceny wyboru pojedynczej usługi. Propozycjęzilustrowano na przykładzie usługi wysyłania wiadomości.
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Podstawowe metody integracji aplikacji trójwarstwowych
PublicationW niniejszym rozdziale przedstawiono klasyfikację metod integracji aplikacji trójwarstwowych. Opisano modele i sposoby rozwiązań dla każdej z typowych warstw: bazy danych, pośredniej i GUI oraz przykłady konkretnego ich wykorzystania wraz z diagramami sekwencji. Przeprowadzono analizę jakościową dla każdego z opisanych modeli, zaproponowano metryki dla parametrów jakościowych: modyfikowalności, spójności danych i wydajności wraz...
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Improving Clairvoyant: reduction algorithm resilient to imbalanced process arrival patterns
PublicationThe Clairvoyant algorithm proposed in “A novel MPI reduction algorithm resilient to imbalances in process arrival times” was analyzed, commented and improved. The comments concern handling certain edge cases in the original pseudocode and description, i.e., adding another state of a process, improved cache friendliness more precise complexity estimations and some other issues improving the robustness of the algorithm implementation....
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The task graph assignment for KASKADA platform
PublicationArtykuł opisuje model obliczeniowy wykorzystany w platformie KASKADA. Opiera się on na dwóch podstawowych elementach: węzłach klastra obliczeniowego oraz grafie zadań. Przeanalizowane zostały algorytmy przydzielania węzłów obliczeniowych dla zadań w zależności od kryteriów: minimalizacja fragmentacji klastra i minimalizacja opóźnienia przetwarzania danych. Zostały przedstawione wyniki symulacji opisanych algorytmów oraz ich...
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Przetwarzanie strumieni multimedialnych z użyciem klastra obliczeniowego
PublicationZaprezentowano docelową funkcjonalność platformy KASKADA oraz sposób konstrukcji kolejnych warstw. Przedstwiono metodę opisu zadań oraz metodę implementacji zadań uzytkowych (framework), których głównym celem jest analiza strumieni multimedialnych dla identyfikacji charakterystycznych obiektów (np. twarzy) oraz niebezpiecznych zdarzeń 9np. bójka0. Zaprezentowano również strategie wykonania tych zadań na komputerze klastrowym w...
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KASKADA - multimedia processing platform architecture
PublicationPrzedstawiono architekturę platformy KASKADA (skrót od: Kontekstowa Analiza Strumieni Danych z Kamer do Aplikacji Definiujących Alarmy), będącą częścią projektu MAYDAY EURO 2012. Opisano nowy wielowarstwowy model przetwarzania strumieni multimedialnych. Zaproponowano następujące warstwy: usług - prostych i złożonych, zadań obliczeniowych i procesów. Przedstawiono przykładowy scenariusz wraz ze szczegółami jego wykonania, jak również...
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Performance and Power-Aware Modeling of MPI Applications for Cluster Computing
PublicationThe paper presents modeling of performance and power consumption when running parallel applications on modern cluster-based systems. The model includes basic so-called blocks representing either computations or communication. The latter includes both point-to-point and collective communication. Real measurements were performed using MPI applications and routines run on three different clusters with both Infiniband and Gigabit Ethernet...
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Real-Time Multimedia Stream data Processing in a Supercomputer Environment
PublicationRozdział opisuje doświadczenia uzyskane przez autorów podczas pracy w projekcie MAYDAY EURO 2012. Przedstawiono główny cel projektu - stworzenie systemu umożliwiającego rozwijanie i równolegle wykonywanie usług multimedialnych w środowisku klastra obliczeniowego dużej mocy. opisano tematykę przetwarzania dużej liczby strumieni multimedialnych na komputerach dużej mocy. Następnie zaprezentowano możliwości platformy KASKADA: tworzenie...
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Processing of Satellite Data in the Cloud
PublicationThe dynamic development of digital technologies, especially those dedicated to devices generating large data streams, such as all kinds of measurement equipment (temperature and humidity sensors, cameras, radio-telescopes and satellites – Internet of Things) enables more in-depth analysis of the surrounding reality, including better understanding of various natural phenomenon, starting from atomic level reactions, through macroscopic...
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Task Allocation and Scalability Evaluation for Real-Time Multimedia Processing in a Cluster Envirinment
PublicationAn allocation algorithm for stream processing tasks is proposed (Modified best Fit Descendent, MBFD). A comparison with another solution (BFD) is provided. Tests of the algorithms in an HPC environment are descrobed and the results are presented. A proper scalability metric is proposed and used for the evaluation of the allocation algorithm.
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The Importance of Demand and Environment for Defining and Establishing the Role of Data Stewards
PublicationData stewardship is now a central part of FAIR research data management. Although various types of positions called data stewards have been created at academic institutions over the last years, no demand-oriented, formal model of data stewardship and the associated roles exist so far. This workshop report presents the outcomes of the panel discussion “The Importance of Demand and Environment for Defining Data Stewardship” held...
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Shaping the competence of future spatial policymakers for small- and medium-sized towns
PublicationIn this article, the authors aim to present issues addressed within the framework of the architecture and spatial development courses offered by the Faculty of Architecture at Gdańsk University of Technology (FA-GUT), Gdańsk, Poland. These issues concern competence in the education of future spatial planners and their readiness to deal with the development challenges facing small- and medium-sized towns. Within the article, the...
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WPŁYW PARAMETRÓW PROCESU SBM NA DYSTRYBUCJĘ TWORZYWA W BUTELKACH PET – PRZEGLĄD LITERATURY
PublicationZ mechanicznego punktu widzenia profil grubości butelek PET jest uwarunkowany mechaniczno-cieplną odpowiedzią tworzywa rozdmuchiwanej preformy na zadane parametry procesu SBM. Z mikroskopowego punktu widzenia na mechaniczne i termiczne właściwości butelek CSD z PET największy wpływ mają procesy orientowania i krystalizowania tworzywa. Z technologicznego punkty widzenia profil grubości butelek PET po procesie produkcji metodą SBM...
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Sodium alginate decreases the permeability of intestinal mucus
PublicationIn the small intestine the nature of the environment leads to a highly heterogeneous mucus layer primarily composed of the MUC2 mucin. We set out to investigate whether the soluble dietary fibre sodium alginate could alter the permeability of the mucus layer. The alginate was shown to freely diffuse into the mucus and to have minimal effect on the bulk rheology when added at concentrations below 0.1%. Despite this lack of interaction...
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Are stabilizing osmolytes preferentially excluded from the protein surface? FTIR and MD studies
PublicationInteractions between osmolytes and hen egg white lysozyme in aqueous solutions were studied by means of FTIR spectroscopy and molecular dynamics. A combination of difference spectra method and chemometric analysis of spectroscopic data was used to determine the number of osmolyte molecules interacting with the protein, and the preferential interaction coefficient in presented systems. Both osmolytes – L-proline and trimethylamine-N-oxide...
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Bile conjugation and its effect on in vitro lipolysis of emulsions
PublicationBile Salts (BS) are responsible for stimulating lipid digestion in our organism. Gut microbiota are responsible for the deconjugation process of primary conjugated to secondary unconjugated BS. We use two structurally distinct BS and characterize the rate of lipolysis as a compound parameter. A static in-vitro digestion model as well as meta-analysis of literature data has been performed to determine the most influential factors...
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Investigation of sweet substances of different molecular structure by potentiometric taste sensor with all solid state electrodes
PublicationA five channel potentiometric taste sensor consisting of an array of All Solid State Electrodes (ASSESs) with different lipid-polymer membranes has been developed. The electrodes are constructed of glassy carbon discs with electrochemically deposited poly(3,4-ethylenedioxythiophene) (PEDOT) acting as ion to electron transducer. The outer layer of the electrode is lipid-polymer membrane. Lipid substances immobilized in PVC membranes...
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Evaluation of a Small Inland Ferry’s Energy Requirements from the Acceleration Stage of Towing Tank Model Tests
PublicationComputing the power required to meet a ship’s operational needs is one of the most important tasks in naval design. The power required to propel a vessel is directly related to the resistance the hull experiences as it moves through the water. The conventional method of determining a ship’s resistance involves towing tank tests of ship models at a fixed speed; however, for short-range vessels, where constant speed is not the primary...
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Time fractional analysis of Casson fluid with application of novel hybrid fractional derivative operator
PublicationA new approach is used to investigate the analytical solutions of the mathematical fractional Casson fluid model that is described by the Constant Proportional Caputo fractional operator having non-local and singular kernel near an infinitely vertical plate. The phenomenon has been expressed in terms of partial differential equations, and the governing equations were then transformed in non-dimensional form. For the sake of generalized...
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Host and pathogen factors in Klebsiella pneumoniae upper urinary tract infections in renal transplant patients
PublicationPurpose . To analyse the role of virulence factors (VFs) and host in Klebsiella pneumoniae upper urinary tract infections (UTIs) in renal transplant (RTx) recipients. Methodology. Clinical and demographic data were registered prospectively. Phylogenetic background of K. pneumoniae isolates was analysed by PCR melting profiles (MP) and the following VFs genes: fimH-1, uge, kpn, ycfM, mrkD, rmpA, magA, hlyA, cnf-1, irp-1, irp-2,...
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A method to synthesise groove cam Geneva mechanisms with increased dwell period
PublicationThe present study develops a method to synthesise the groove cam Geneva mechanism with increased dwell period. The main condition of the synthesis is to provide the desired law of motion of the wheel. Additional synthesis conditions are the limitation of the maximum pressure angle and the limitation of the minimum curvature radius of the cam profile. Unlike the conventional Geneva mechanisms, the synthesised groove cam Geneva mechanisms...
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Microencapsulation of fish oil – determination of optimal wall material and encapsulation methodology
PublicationFor the first time, we present a meta-analysis of experimental and literature data to determine which microencapsulation methodology, and which wall material are best suited to protect fish oil. Our analysis covered a period of several decades of research (1984–2018). The analysis was conducted on 196 literature data-points, and 16 data-points determined experimentally for this publication. PLS regression was used to determine...
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Adiponectin is unrelated to kidney function or injury markers in renal transplant recipients: A one-year follow-up study
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RDF dataset profiling - a survey of features, methods, vocabularies and applications
PublicationThe Web of Data, and in particular Linked Data, has seen tremendous growth over the past years. However, reuse and take-up of these rich data sources is often limited and focused on a few well-known and established RDF datasets. This can be partially attributed to the lack of reliable and up-to-date information about the characteristics of available datasets. While RDF datasets vary heavily with respect to the features related...
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Accuracy of Trajectory Tracking Based on Nonlinear Guidance Logic for Hydrographic Unmanned Surface Vessels
PublicationA new trend in recent years for hydrographic measurement in water bodies is the use of unmanned surface vehicles (USVs). In the process of navigation by USVs, it is particularly important to control position precisely on the measuring profile. Precise navigation with respect to the measuring profile avoids registration of redundant data and thus saves time and survey costs. This article addresses the issue of precise navigation...
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Scheduling for Industrial Control Traffic Using Massive MIMO and Large Intelligent Surfaces
PublicationIndustry 4.0, with its focus on flexibility and customizability, is pushing in the direction of wireless communication in future smart factories, in particular massive multiple-input multiple-output (MIMO), and its future evolution Large Intelligent Surfaces (LIS), which provide more reliable channel quality than previous technologies. As such, there arises the need to perform efficient scheduling of industrial control traffic...
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Comparison of Average Energy Slope Estimation Formulas for One-dimensional Steady Gradually Varied Flow
PublicationTo find the steady flow water surface profile, it is possible to use Bernoulli’s equation, which is a discrete form of the differential energy equation. Such an approach requires the average energy slope between cross-sections to be estimated. In the literature, many methods are proposed for estimating the average energy slope in this case, such as the arithmetic mean, resulting in the standard step method, the harmonic mean and...
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Badania nośności na zginanie innowacyjnego kształtownika giętego na zimno typu GEB
PublicationLekkie konstrukcje metalowe wytwarzane z kształtowników giętych na zimno to jedna z najszybciej rozwijających się dyscyplin w zakresie budownictwa. Do niedawna profile gięte na zimno stosowano wyłącznie jako elementy drugorzędne, czyli płatwie oraz rygle. Nowo opatentowany przekrój typu GEB ma być wykorzystywany jako element nośny konstrukcji ramowych. Jednak jego zaistnienie na rynku budowlanych konstrukcji metalowych jest uwarunkowane...
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The occurrence of polycyclic aromatic hydrocarbons (PAHs) and polychlorinated biphenyls (PCBs) in the chosen area of Svalbard
PublicationIn the recent years, scientists have been paying more attention to the impact of compounds of anthropogenic origin on the environment. Polycyclic aromatic hydrocarbons (PAHs) and polychlorinated biphenyls (PCBs) are both groups of stable organic compounds, difficult to biodegrade, and potentially toxic. Because of their affinity to lipids, they can accumulate in fat tissue and exert influence on animal health. This paper present...
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APPLICABILITY OF INLET AIR FOGGING TO MARINE GAS TURBINE
PublicationThe dependency of marine gas turbine on the ambient temperature leads to a decrease of the gas turbine power output in arid areas. Very often gas turbine power output demand is high and the power margins originally designed into the driver , has been exhausted. In such circumstances the inlet air fogging is an effective compensation of gas turbine power. In this paper an analysis of inlet air fogging applicability to marine gas...
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Correlation between in vitro and in vivo data on food digestion. What can we predict with static in vitro digestion models?
PublicationDuring the last decade, there has been a growing interest in understanding food's digestive fate in order to strengthen the possible effects of food on human health. Ideally, food digestion should be studied in vivo on humans but this is not always ethically and financially possible. Therefore, simple in vitro digestion models mimicking the gastrointestinal tract have been proposed as alternatives to in vivo experiments. Thus,...
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WYKORZYSTANIE TESTU MUSHRA W BADANIU KORZYŚCI UŻYTKOWANIA PROTEZ SŁUCHOWYCH
PublicationOcena jakości dopasowania aparatów słuchowych w kontekście korzyści, jakie może przy-nieść proteza jest złożonym zagadnieniem. Obiektywne parametry aparatów, które można wy-znaczyć (np. wzmocnienie czy pasmo przenoszenia) nie zawsze mają bezpośredni i decydujący wpływ w subiektywnej ocenie jakości dopasowania protezy słuchowej przez pacjenta. Pomiary efektywności aparatu słuchowego mogą dotyczyć wielu aspektów, między innymi kompensacji...
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Regulated Control of the Assembly and Diversity of LPS by Noncoding sRNAs
PublicationThe outer membrane (OM) of Gram-negative bacteria is asymmetric due to the presence of lipopolysaccharide (LPS) facing the outer leaflet of the OM and phospholipids facing the periplasmic side. LPS is essential for bacterial viability, since it provides a permeability barrier and is a major virulence determinant in pathogenic bacteria. In Escherichia coli, several steps of LPS biosynthesis and assembly are regulated by the RpoE...
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On topology optimization of large deformation contact-aided shape morphing compliant mechanisms
PublicationA topology optimization approach for designing large deformation contact-aided shape morphing compliant mechanisms is presented. Such mechanisms can be used in varying operating conditions. Design domains are described by regular hexagonal elements. Negative circular masks are employed to perform dual task, i.e., to decide material states of each element and also, to generate rigid contact surfaces. Each mask is characterized by...
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Combining MUSHRA Test and Fuzzy Logic in the Evaluation of Benefits of Using Hearing Prostheses
PublicationAssessing the effectiveness of hearing aid fittings based on the benefits they provide is crucial but intricate. While objective metrics of hearing aids like gain, frequency response, and distortion are measurable, they do not directly indicate user benefits. Hearing aid performance assessment encompasses various aspects, such as compensating for hearing loss and user satisfaction. The authors suggest enhancing the widely used...
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On Tradeoffs Between Width- and Fill-like Graph Parameters
PublicationIn this work we consider two two-criteria optimization problems: given an input graph, the goal is to find its interval (or chordal) supergraph that minimizes the number of edges and its clique number simultaneously. For the interval supergraph, the problem can be restated as simultaneous minimization of the path width pw(G) and the profile p(G) of the input graph G. We prove that for an arbitrary graph G and an integer t ∈ {1,...
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Data Analysis in Bridge of Data
PublicationThe chapter presents the data analysis aspects of the Bridge of Data project. The software framework used, Jupyter, and its configuration are presented. The solution’s architecture, including the TRYTON supercomputer as the underlying infrastructure, is described. The use case templates provided by the Stat-reducer application are presented, including data analysis related to spatial points’ cloud-, audio- and wind-related research.
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DEPO: A dynamic energy‐performance optimizer tool for automatic power capping for energy efficient high‐performance computing
PublicationIn the article we propose an automatic power capping software tool DEPO that allows one to perform runtime optimization of performance and energy related metrics. For an assumed application model with an initialization phase followed by a running phase with uniform compute and memory intensity, the tool performs automatic tuning engaging one of the two exploration algorithms—linear search (LS) and golden section search (GSS), finds...
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Survey of Methodologies, Approaches, and Challenges in Parallel Programming Using High-Performance Computing Systems
PublicationThis paper provides a review of contemporary methodologies and APIs for parallel programming, with representative technologies selected in terms of target system type (shared memory, distributed, and hybrid), communication patterns (one-sided and two-sided), and programming abstraction level. We analyze representatives in terms of many aspects including programming model, languages, supported platforms, license, optimization goals,...
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Influence of YARN Schedulers on Power Consumption and Processing Time for Various Big Data Benchmarks
PublicationClimate change caused by human activities can influence the lives of everybody onthe planet. The environmental concerns must be taken into consideration by all fields of studyincludingICT. Green Computing aims to reduce negative effects of IT on the environment while,at the same time, maintaining all of the possible benefits it provides. Several Big Data platformslike Apache Spark orYARNhave become widely used in analytics and...
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A Model-Driven Solution for Development of Multimedia Stream Processing Applications
PublicationThis paper presents results of action research related to model-driven solutions in the area of multimedia stream processing. The practical problem to be solved was the need to support application developers who make their multimedia stream processing applications in a supercomputer environment. The solution consists of a domain-specific visual language for composing complex services from simple services called Multimedia Stream...
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Modele przetwarzania aplikacji na klastrach obliczeniowych
PublicationW dzisiejszych czasach badania prowadzone w różnych dziedzinach nauki a także różnego rodzaju aplikacje i wdrożone systemy operują na coraz większych wolumenach danych przy jednocześnie rosnących wymaganiach dotyczących czasu wykonania. Z tego powodu coraz częściej do obliczeń wykorzystuje się klastry obliczeniowe, gdzie do dyspozycji użytkowników pozostaje ogromna moc obliczeniowa (liczona w tera a nawet peta flopach), terabajty...
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Evaluation of Multimedia Stream Processing Modeling Language from the Perspective of Cognitive Dimensions
PublicationW referacie zawarto opis zastosowania wymiarów poznawczych do oceny języka modelowania przetwarzania strumieni multimedialnych, nazwanego MSP-ML, w trakcie tworzenia tego języka. Poszczególne części referatu prezentują kontekst i motywacje oceny MSP-ML, metodę oceny, rezultaty oceny oraz porównanie rezultatów oceny z wynikami otrzymanymi za pomocą innych metod oceny języków modelowania wizualnego.
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Integracja usług multimedialnych na przykładzie platformy KASKADA
PublicationOpisano metody integracji wykorzystywane podczas tworzenia aplikacji na platformie KASKADA. Przedstawiono trzy podstawowe elementy podlegające integracji: aplikacje, usługi i urządzenia zewnętrzne. Zaproponowano metody współpracy między nimi, jak również przedstawiono szczegóły techniczne komunikacji: usługi sieciowe dla synchronicznego wykonywania usług, system kolejkowy dla asynchronicznej wymiany wiadomości oraz specjalnie zaprojektowany...
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Parallel processing of multimedia streams
PublicationRozdział przedstawia platformę KASKADA służącą do przetwarzania strumieni multimedialnych. Został opisany jej projekt: diagramy UML klas i sekwencji obrazujące mechanizmy przetwarzania strumieni, oraz szczegóły komunikacji. Zaprezentowano, również, specjalistyczny framework wspomagający tworzenie i wykonywanie algorytmów, jak również definiowanie scenariuszy usług, wraz z oceną ich użyteczności.