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prof. dr hab. inż. Henryk Krawczyk
Employment
- Główny specjalista - kierownik projektu at Academic Computer Centre TASK
- Professor at Department of Computer Architecture
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total: 198
Catalog Publications
Year 2024
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Multi-GPU UNRES for scalable coarse-grained simulations of very large protein systems
PublicationGraphical Processor Units (GPUs) are nowadays widely used in all-atom molecular simulations because of the advantage of efficient partitioning of atom pairs between the kernels to compute the contributions to energy and forces, thus enabling the treatment of very large systems. Extension of time- and size-scale of computations is also sought through the development of coarse-grained (CG) models, in which atoms are merged into extended...
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Multi-GPU-powered UNRES package for physics-based coarse-grained simulations of structure, dynamics, and thermodynamics of protein systems at biological size- and timescales
PublicationCoarse-grained models are nowadays extensively used in biomolecular simulations owing to the tremendous extension of size- and time-scale of simulations. The physics-based UNRES (UNited RESidue) model of proteins developed in our laboratory has only two interaction sites per amino-acid residue (united peptide groups and united side chains) and implicit solvent. However, owing to rigorous physics-based derivation, which enabled...
Year 2023
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General Provisioning Strategy for Local Specialized Cloud Computing Environments
PublicationThe well-known management strategies in cloud computing based on SLA requirements are considered. A deterministic parallel provisioning algorithm has been prepared and used to show its behavior for three different requirements: load balancing, consolidation, and fault tolerance. The impact of these strategies on the total execution time of different sets of services is analyzed for randomly chosen sets of data. This makes it possible...
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Long‐time scale simulations of virus‐like particles from three human‐norovirus strains
PublicationThe dynamics of the virus like particles (VLPs) corresponding to the GII.4 Houston, GII.2 SMV, and GI.1 Norwalk strains of human noroviruses (HuNoV) that cause gastroenteritis was investigated by means of long-time (about 30 μs in the laboratory timescale) molecular dynamics simulations with the coarse-grained UNRES force field. The main motion of VLP units turned out to be the bending at the junction between the P1 subdomain (that...
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Optimization of parallel implementation of UNRES package for coarse‐grained simulations to treat large proteins
PublicationWe report major algorithmic improvements of the UNRES package for physics-based coarse-grained simulations of proteins. These include (i) introduction of interaction lists to optimize computations, (ii) transforming the inertia matrix to a pentadiagonal form to reduce computing and memory requirements, (iii) removing explicit angles and dihedral angles from energy expressions and recoding the most time-consuming energy/force terms...
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Parallel implementation of a Sailing Assistance Application in a Cloud Environment
PublicationSailboat weather routing is a highly complex problem in terms of both the computational time and memory. The reason for this is a large search resulting in a multitude of possible routes and a variety of user preferences. Analysing all possible routes is only feasible for small sailing regions, low-resolution maps, or sailboat movements on a grid. Therefore, various heuristic approaches are often applied, which can find solutions...
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UNRES-GPU for Physics-Based Coarse-Grained Simulations of Protein Systems at Biological Time- and Size-Scales
PublicationThe dynamics of the virus like particles (VLPs) corresponding to the GII.4 Houston, GII.2 SMV, and GI.1 Norwalk strains of human noroviruses (HuNoV) that cause gastroenteritis was investigated by means of long-time (about 30 μs in the laboratory timescale) molecular dynamics simulations with the coarse-grained UNRES force field. The main motion of VLP units turned out to be the bending at the junction between the P1 subdomain (that...
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Visual Features for Improving Endoscopic Bleeding Detection Using Convolutional Neural Networks
PublicationThe presented paper investigates the problem of endoscopic bleeding detection in endoscopic videos in the form of a binary image classification task. A set of definitions of high-level visual features of endoscopic bleeding is introduced, which incorporates domain knowledge from the field. The high-level features are coupled with respective feature descriptors, enabling automatic capture of the features using image processing methods....
Year 2022
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Algorytm mrówkowy do zarządzania zasobami sprzętowymi chmury obliczeniowej w przypadku różnych kategorii usług
PublicationZarządzanie chmurą obliczeniową odbywa się na dwóch poziomach: zarządzanie żądaniami klientów chmury oraz zarządzanie jej infrastrukturą, na której te usługi są realizowane. Analizując standardy dotyczące zarządzania usługami, w niniejszym rozdziale skoncentrowano się na drugim poziomie zarządzania, którego głównym celem jest efektywne wykonanie wskazanej usługi (lub usług) na dostępnych zasobach sprzętowych, tak by spełnione zostały...
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Inteligentne zarządzanie usługami chmurowymi
PublicationRozwój chmur obliczeniowych stanowi wyzwanie dla nowych efektywnych metod zarządzania zasobami chmurowymi, zwłaszcza, że oprócz usług typu SaaS rozwija się nowe kategorie usług jak obliczenia brzegowe czy wielochmurowe. W pracy zaproponowano ogólny model zarządzania usługami oraz efektywne procedury alokacji zasobów. Podkreślono potrzebę oszacowania parametrów zasobów chmury by zapewnić wykonanie żądanych usług. Przedstawiono również...
Year 2021
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Paradoks decyzyjny – racjonalne i intuicyjne podejmowanie decyzji
PublicationW pracy scharakteryzowano poszczególne etapy działań prowadzące do znajdowania najlepszych rozwiązań dla rozpatrywanego problemu. Zwrócono uwagę na paradoks decyzyjny który wskazuje, że mądre rozwiązanie problemu wymaga zarówno racjonalnego, jak i intuicyjnego podejścia. Na przykładzie sortowania obrazów zaprezentowano niezależnie oba podejścia podkreślając potrzebę ich wzajemnego uzupełniania się. Podkreślono trudność budowy algorytmów,...
Year 2020
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A Universal Theory of Wisdom . A Mind - oriented Approach
PublicationThe purpose of the paper is to synthesize the issues of human wisdom in terms of minds which create knowledge-based judgment. We form a transdisciplinary, big-picture view of the wisdom of humans. Findings: Wisdom is the right judgment and choice in the context of the art of living. Practical implications: Wisdom can be developed within the set of minds. Social implications: To pursue wisdom in thinking and action, one must extend...
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Bridge of Knowledge: an Internet platform for R2R and R2B transfer of knowledge and promotion of cooperation
PublicationCurrently, the European Commission puts emphasis on supporting collaboration between universities and business. There are many possible ways to create a strong relationship between both these parties. Positive results of such cooperation lead to increased competitiveness of the global market and, in consequence, bring significant growth of innovation. The cooperation between research-to-research (R2R) and research-to-business (R2B)...
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SERVICE-ORIENTED CYBERSPACE FOR IMPROVING CYBERSECURITY
PublicationThe paper presents a cyberspace model where different categories of IT services are offered and used largely. A general cybersecurity policy is considered and the corresponding cybersecurity strategies are shown. The role of such technologies as: Internet of Things, Cloud Computing and Big Data is analyzed in order to improve the cybersecurity of a cyberspace. A new kind of service oriented cyberspace is proposed and its main properties...
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Smart Services for Improving eCommerce
PublicationThe level of customer support provided by the existing eCom-merce solutions assumes that the person using the functionality of theshop has sufficient knowledge to decide on the purchase transaction. Alow conversion rate indicates that customers are more likely to seekknowledge about the particular product than finalize the transaction.This is facilitated by the continuous development of customers’ digi-tal...
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SMART SHOP SERVICES FOR BUILDING CUSTOMER-ORIENTED SCENARIOS
PublicationThe shops of today mostly support the customer by offering him or her products based on basic relationships between products viewed or ordered by users with similar tastes. This common approach may fail in many cases especially when the user does not have sufficient knowledge about the market, or when he or she wants to build a set of products in more than one shop. New categories of smart shop services are proposed in order to...
Year 2019
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Mądre podejmowanie decyzji w sytuacjach problematycznych poprawiajace wybór rozwiązań
PublicationPrzedstawiono klasyfikację problemów od precyzyjnie zdefiniowanych do intuicyjnie zrozumiałych. Dla tych drugich zaproponowano nowy model wyboru rozwiązań uwzględniający ocenę ich zalet i wad. Rozpatrzono zarówno indywidualne jak i zespołowe procedury podejmowania takich decyzji. Zasygnalizowano możliwości występowania nierozstrzygalnych sytuacji, które wymagają mądrych ludzkich działań. Sprowadzają się one do wyboru właściwej...
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Systematic approach to binary classification of images in video streams using shifting time windows
Publicationin the paper, after pointing out of realistic recordings and classifications of their frames, we propose a new shifting time window approach for improving binary classifications. We consider image classification in tewo steps. in the first one the well known binary classification algorithms are used for each image separately. In the second step the results of the previous step mare analysed in relatively short sequences of consecutive...
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The preferable ways of decision-making in IT teams
PublicationSoftware development team collaboration requires various decisions regarding essential aspects of a project’s progress. General and particular decision-making models are considered, and their main aspects such as team types, problem solving categories, and decision-making ways are analyzed. The research concerns representative groups of IT specialists and their preferences in decision-making are investigated. Four possible cases were...
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Wisdom in the context of globalization and civilization
PublicationThe book seeks to answer the question - what is wisdom and how should it be used in everyday life? A model of wisdom is presented in which wisdom describes three attributes: knowledge, qualifications (skills) and inspirations leading to consciously controlled processes of correct assessment of the situation and the correct choice of solution options in the context of the art of living. For each attribute, we can specify a set of...
Year 2018
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Aplikacje i usługi a technologie sieciowe
PublicationObserwując tempo rozwoju technologii sieciowych oraz usług i aplikacji stajemy przed ogromnym dylematem jak wykorzystać istniejące możliwości by modernizować wybrane usługi i aplikacje zgodnie z ciągle zmieniającymi się potrzebami użytkowników. Bardzo często sygnalizowane nowe technologie czy aplikacje mają jednak czysto charakter biznesowy podporządkowany prawom marketingu i nie wnoszą wielu istotnych zmian. Dlatego jest ważne...
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Aspect-Oriented Management of Service Requests for Assurance of High Performance and Dependability
PublicationA new approach to service requests management in case of insufficient hardware resources is proposed. It is based on wide aspects of requests analysis and it assures reliable and fast access to priority services. Requests are analyzed for, among others, time of occurrence, category of user who made the request, type of service, current system load and hardware utilization. Deterministic but dynamic rules help to manage system load...
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Effective Decision-Making in Supply Chain Management
PublicationProper decision-making in Supply Chain Management (SCM) is crucial for an appropriately functioning mechanisms. The paper presents how IT technologies can impact on an organization and process realization. Especially Service Oriented Architecture (SOA) standard and the Cloud Computing (CC) paradigms are taken into account. A general model of decision-making is proposed and based on a specific practical example is analyzed using...
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Extending Continuous Integration with Post-mortem Debug Automation of Unhandled Exceptions Occurred in Kernel or User Mode Applications
PublicationThe paper proposes extension of the Continuous Integration practices with debug automation of unhandled exceptions. Goal of this improvement is to reduce the amount of redundant work when inspecting hundreds of failed tests from possibly the same reason, and to decrease time necessary to provide a fix to the codebase. The suitable CI infrastructure is proposed and an automatic method how to eliminate duplicated bugs is discussed....
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Impact of Shifting Time-Window Post-Processing on the Quality of Face Detection Algorithms
PublicationWe consider binary classification algorithms, which operate on single frames from video sequences. Such a class of algorithms is named OFA (One Frame Analyzed). Two such algorithms for facial detection are compared in terms of their susceptibility to the FSA (Frame Sequence Analysis) method. It introduces a shifting time-window improvement, which includes the temporal context of frames in a post-processing step that improves the...
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Improving methods for detecting people in video recordings using shifting time-windows
PublicationWe propose a novel method for improving algorithms which detect the presence of people in video sequences. Our focus is on algorithms for applications which require reporting and analyzing all scenes with detected people in long recordings. Therefore one of the target qualities of the classification result is its stability, understood as a low number of invalid scene boundaries. Many existing methods process images in the recording...
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Improving Traffic Light Recognition Methods using Shifting Time-Windows
PublicationWe propose a novel method of improving algorithms recognizing traffic lights in video sequences. Our focus is on algorithms for applications which notify the driver of a light in sight. Many existing methods process images in the recording separately. Our method bases on the observation that real-life videos depict underlying continuous processes. We named our method FSA (Frame Sequence Analyzed). It is applicable for any underlying...
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Mashup Approaches for Improving Service Oriented Business Scenarios
PublicationTwo kinds of business scenarios are considered: application- and service-oriented. It is shown that the former are more flexible and easier reconfigurable for both traditional (human-oriented) and IT services. Moreover, complex IT services can be created by simple IT services using the modern mashup technology. It is the reason why such business scenarios can be modeled by BPMN in much easier ways. A simple example of a supply...
Year 2017
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Categorization of Cloud Workload Types with Clustering
PublicationThe paper presents a new classification schema of IaaS cloud workloads types, based on the functional characteristics. We show the results of an experiment of automatic categorization performed with different benchmarks that represent particular workload types. Monitoring of resource utilization allowed us to construct workload models that can be processed with machine learning algorithms. The direct connection between the functional...
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DECISION - MAKING IN VIRTUAL SOFTWARE TEAMS USING CLOUD PLATFORMS
PublicationSoftware development projects are usually realized by traditional or virtual IT teams using computing clouds. Team collaboration requires decision - making regarding essential aspects of a project progress. The article concerns methods of decision – making process in the case of traditional and virtual teams’ work. The research results conducted in a group of IT specialists are presented, and to analyze their preferences in decision-making...
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ENTERPRISE ACTIVITIES MODELING BY BPMN NOTATION
PublicationDepending on the process behavior, available know-how and organizational goals, different techniques and tools can be used for business process modeling. We concentrate on e-commerce, and try to find the best marketing strategy for the sales process improvement. In the paper we present the multilayer approach to define enterprise scenarios. This allows us to collect the suitable knowledge necessary for enterprise analysis and improvement....
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INFORMATION SOCIETY DEVELOPMENT TRENDS, FROM DATA THROUGH KNOWLEDGE TO WISDOM
PublicationThe paper investigates both the causes and effects of the rapid increase in the data volume(BigData)andtheirimpactonhumancognition.TheroleoftheInternetindistributing and exchanging of such data, and their impact on the growth of the Information Society are emphasized. As a result, Wisdom Science – a new kind of research – emerges which has the potential to facilitate more advanced solutions in the digital world. In consequence,...
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Mobile devices and computing cloud resources allocation for interactive applications
PublicationUsing mobile devices such as smartphones or iPads for various interactive applications is currently very common. In the case of complex applications, e.g. chess games, the capabilities of these devices are insufficient to run the application in real time. One of the solutions is to use cloud computing. However, there is an optimization problem of mobile device and cloud resources allocation. An iterative heuristic algorithm for...
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Multidisciplinary Open System Transferring Knowledge for R2B Development
PublicationDespite many efforts, there is still a serious problem in transferring knowledge from research to business. The problem is especially visible in Poland – the cooperation of R2B is ineffective. We are trying to solve this problem using some IT support. The manuscript presents some solutions developed at the Gdańsk University of Technology. In particular, the platform called “MOST Knowledge” is deeply described. Its layer architecture,...
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Practical Evaluation of Internet Systems' Security Mechanisms
PublicationA proposed Internet systems security layer with context-oriented security mechanisms reduces the risk associated with possible vulnerabilities. A metric of the system trust level is proposed, and then evaluated according to a university Internet system.
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SERVICE ORIENTED SCENARIOS FOR SUPPORT ENTERPRISE PROJECT MANAGEMENT
PublicationIn the paper, a service oriented architecture is used to describe various scenarios of human-oriented enterprises. They can be modeled by BPMN to show basic information flow. We consider business scenarios to present another modeling solution called service orchestration or service mashup. That approach gives an opportunity for the right management through taking the best possible choice of services, or composition of services....
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Smart Services supporting Drivers in Effective Cars Parking
PublicationThe paper shows how to design and implement intelligent, service oriented systems for management of free places in distributed car parks. The idea of SOA technology is widely used. It is assumed that a state of every car park is automatically determined by a special electronic infrastructure including IoT solutions. The information received from such an infrastructure is sent to the main management system, which processes it and,...
Year 2016
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Automatic Discovery of IaaS Cloud Workload Types
PublicationThe paper presents an approach to automatic discovery of workloads types. We perform functional characteristics of the workloads executed in our cloud environment, that have been used to create model of the computations. To categorize the resources utilization we used K-means algorithm, that allow us automatically select six types of computations. We perform analysis of the discovered types against to typical computational benchmarks,...
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Category-Based Workload Modeling for Hardware Load Prediction in Heterogeneous IaaS Cloud
PublicationThe paper presents a method of hardware load prediction using workload models based on application categories and high-level characteristics. Application of the method to the problem of optimization of virtual machine scheduling in a heterogeneous Infrastructure as a Service (IaaS) computing cloud is described.
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Clustering Context Items into User Trust Levels
PublicationAn innovative trust-based security model for Internet systems is proposed. The TCoRBAC model operates on user profiles built on the history of user with system interaction in conjunction with multi-dimensional context information. There is proposed a method of transforming the high number of possible context value variants into several user trust levels. The transformation implements Hierarchical Agglomerative Clustering strategy....
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Multi-level Virtualization and Its Impact on System Performance in Cloud Computing
PublicationThe results of benchmarking tests of multi-level virtualized environments are presented. There is analysed the performance impact of hardware virtualization, container-type isolation and programming level abstraction. The comparison is made on the basis of a proposed score metric that allows you to compare different aspects of performance. There is general performance (CPU and memory), networking, disk operations and application-like...
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ZARZADZANIE ORGANIZACJĄ TYPU SMART
PublicationZaprezentowano organizacji, w której charakterystykę wpisano następujące cechy: strategiczne uwarunkowanie, maksymalną innowacyjność, atrakcyjność dla interesariuszy, rozwijanie osobowości pracowników oraz twórczość w działaniu. Te atrybuty, tworzą koncepcję organizacji SMART (akronim od pierwszych liter powyższych cech), która wyróżnia się dodatkowo strukturą opartą o dynamicznie kreowane zespoły oraz skutecznym wspomaganiem...
Year 2015
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A method for counting people attending large public events
PublicationThe algorithm for people counting in crowded scenes, based on the idea of virtual gate which uses optical flow method is presented. The concept and practical application of the developed algorithm under real conditions is depicted. The aim of the work is to estimate the number of people passing through entrances of a large sport hall. The most challenging problem was the unpredicted behavior of people while entering the building....
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C2 Niwa - The Centre of Competence for Novel Infrastructure of Workable Applications
PublicationScientific and cloud computing are discussed in the paper . The paradigm of EaaS (Everything as a Service) is presented and the design methodology of service oriented applications is proposed. Implementation of the SOSE (Software Oriented Software Engineering) approach is analyzed and the roles of developing teams to obtain software products satisfying business requirements are also shown. The above listed activities create a basic...
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CD NIWA jako platforma współpracy biznesu i nauki
PublicationArtykuł prezentuje koncepcję Centrum Doskonałości Naukowej Infrastruktury Wytwarzania Aplikacji: CD NIWA, które jest środowiskiem przetwarzania w chmurze obliczeniowej, źródłem stale doskonalonych aplikacji i usług oraz platformą współpracy użytkowników. Interaktywność współdziałania nauki i biznesu jest głównym założeniem i celem Centrum Doskonałości NIWA, które ma też służyć budowaniu społeczności współpracującej w zakresie realizacji...
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KASKADA Platform in Cloud Environment
PublicationKASKADA is a computing platform for developing and running services and applications oriented to multimedia processing and data streaming. A solution for serving the platform in the PaaS model is presented. The paper briefly describes the software for creating the private cloud environment based on the OpenStack software. The coud has been deployed to a supercomputer working in C2 NIWA at the Gdansk University of technology. This...
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Massive surveillance data processing with supercomputing cluster
PublicationIn recent years, increasingly complex algorithms for automated analysis of surveillance data are being developed. The rapid growth in the number of monitoring installations and higher expectations of the quality parameters of the captured data result in an enormous computational cost of analyzing the massive volume of data. In this paper a new model of online processing of surveillance data streams is proposed, which assumes the...
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Mobile Offloading Framework: Solution for Optimizing Mobile Applications Using Cloud Computing
PublicationNumber of mobile devices and applications is growing rapidly in recent years. Capabilities and performance of these devices can be tremendously extended with the integration of cloud computing. However, multiple challenges regarding implementation of these type of mobile applications are known, like differences in architecture, optimization and operating system support. This paper summarizes issues with mobile cloud computing and...
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Platforma KASKADA jako system zapewniania bezpieczeństwa poprzez masową analizę strumieni multimedialnych w czasie rzeczywistym
PublicationW artykule przedstawiono Platformę KASKADA rozumianą jako system przetwarzania danych cyfrowych i strumieni multimedialnych oraz stanowiącą ofertę usług wspomagających zapewnienie bezpieczeństwa publicznego, ocenę badań medycznych i ochronę własności intelektualnej. celem prowadzonych prac było stworzenie innowacyjnego systemu umozliwiajacego wydajną i masową analizę dokumentów cyfrowych i strumieni multimedialnych w czasie rzeczywistym...
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Program IPMed — zastosowanie kardiografii impedancyjnej do monitorowania układu krążenia
PublicationZaburzenia hemodynamiczne stanowią drugą najczęstszą przyczynę zgonu u chorych po udarze mózgu. Istniejące standardy postępowania nie uwzględniają pełnej diagnostyki układu sercowo-naczyniowego u tych chorych. W niniejszej pracy przedstawiono wieloośrodkowy projekt IPMed, który jest próbą aplikacji kardiografii impedancyjnej (ICG) do monitorowania hemodynamiki pacjentów po udarze mózgu.
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