Archiving Primary Data: Solutions for Long-Term Studies.

The recent trend for journals to require open access to primary data included in publications has been embraced by many biologists, but has caused apprehension amongst researchers engaged in long-term ecological and evolutionary studies. A worldwide survey of 73 principal investigators (Pls) with long-term studies revealed positive attitudes towards sharing data with the agreement or involvement of the PI, and 93% of PIs have historically shared data. Only 8% were in favor of uncontrolled, open access to primary data while 63% expressed serious concern. We present here their viewpoint on an issue that can have non-trivial scientific consequences. We discuss potential costs of public data archiving and provide possible solutions to meet the needs of journals and researchers.

Open research data policies, what makes the difference?

Poster at Open Repositories 2014, Helsinki, Finland, June 9-13, 2014

Towards combining interactive mobile TV and smart spaces : architectures, tools and application development

Technological developments in microprocessors and ICT landscape have made a shift to a new era where computing power is embedded in numerous small distributed objects and devices in our everyday lives. These small computing devices are ne-tuned to perform a particular task and are increasingly reaching our society at every level. For example, home appliances such as programmable washing machines, microwave ovens etc., employ several sensors to improve performance and convenience. Similarly, cars have on-board computers that use information from many di erent sensors to control things such as fuel injectors, spark plug etc., to perform their tasks e ciently. These individual devices make life easy by helping in taking decisions and removing the burden from their users. All these objects and devices obtain some piece of information about the physical environment. Each of these devices is an island with no proper connectivity and information sharing between each other. Sharing of information between these heterogeneous devices could enable a whole new universe of innovative and intelligent applications. The information sharing between the devices is a diffcult task due to the heterogeneity and interoperability of devices. Smart Space vision is to overcome these issues of heterogeneity and interoperability so that the devices can understand each other and utilize services of each other by information sharing. This enables innovative local mashup applications based on shared data between heterogeneous devices. Smart homes are one such example of Smart Spaces which facilitate to bring the health care system to the patient, by intelligent interconnection of resources and their collective behavior, as opposed to bringing the patient into the health system. In addition, the use of mobile handheld devices has risen at a tremendous rate during the last few years and they have become an essential part of everyday life. Mobile phones o er a wide range of different services to their users including text and multimedia messages, Internet, audio, video, email applications and most recently TV services. The interactive TV provides a variety of applications for the viewers. The combination of interactive TV and the Smart Spaces could give innovative applications that are personalized, context-aware, ubiquitous and intelligent by enabling heterogeneous systems to collaborate each other by sharing information between them. There are many challenges in designing the frameworks and application development tools for rapid and easy development of these applications. The research work presented in this thesis addresses these issues. The original publications presented in the second part of this thesis propose architectures and methodologies for interactive and context-aware applications, and tools for the development of these applications. We demonstrated the suitability of our ontology-driven application development tools and rule basedapproach for the development of dynamic, context-aware ubiquitous iTV applications.

Análisis de la actuación de la Autoridad Ejecutiva Temporal de las Naciones Unidas – (UNTEA) en la protección de los derechos políticos de los grupos vulnerables. Estudio de caso: Adhesión de Papúa Occidental a Indonesia (1962-1969)

Estudio de caso en el análisis de la situación afrontada por la población de Papúa Occidental durante el periodo de 1962-1969, época en la que la nueva República de Indonesia y Holanda se disputaban la soberanía sobre el territorio papuano. Dicha disputa tuvo lugar durante la época de Guerra Fría, lo que llevó a que Estados Unidos junto con sus aliados en la región y la Unión Soviética intervinieran en él. Finalmente, Estados Unidos teniendo en cuenta sus intereses favoreció a la República de Indonesia y obligó a Holanda firmar el Acuerdo de Nueva York, en el que se establecía que sería la Autoridad Ejecutiva Temporal de las Naciones Unidas quien administrara y preparara el territorio para un futuro Acto de Libre Elección. En cualquiera que fuese el panorama, las Naciones Unidas no cumplieron con lo establecido en el Acuerdo lo que llevó a que fueran condescendientes con todas las peticiones indonesias sin tener en cuenta los deseos y los derechos de la población papuana, violándose su derecho de auto-determinación de los pueblos.

Transmathematical basis of infinitely scalable pipeline machines

We describe infinitely scalable pipeline machines with perfect parallelism, in the sense that every instruction of an inline program is executed, on successive data, on every clock tick. Programs with shared data effectively execute in less than a clock tick. We show that pipeline machines are faster than single or multi-core, von Neumann machines for sufficiently many program runs of a sufficiently time consuming program. Our pipeline machines exploit the totality of transreal arithmetic and the known waiting time of statically compiled programs to deliver the interesting property that they need no hardware or software exception handling.

Architecture for peer-to-peer databases with routing queries using ant colony algorithm and semantic support

In a peer-to-peer network, the nodes interact with each other by sharing resources, services and information. Many applications have been developed using such networks, being a class of such applications are peer-to-peer databases. The peer-to-peer databases systems allow the sharing of unstructured data, being able to integrate data from several sources, without the need of large investments, because they are used existing repositories. However, the high flexibility and dynamicity of networks the network, as well as the absence of a centralized management of information, becomes complex the process of locating information among various participants in the network. In this context, this paper presents original contributions by a proposed architecture for a routing system that uses the Ant Colony algorithm to optimize the search for desired information supported by ontologies to add semantics to shared data, enabling integration among heterogeneous databases and the while seeking to reduce the message traffic on the network without causing losses in the amount of responses, confirmed by the improve of 22.5% in this amount. © 2011 IEEE.

Modelo estrutural para compartilhamento de arquivos peer-to-peer

Pós-graduação em Ciência da Computação - IBILCE

Architectures for Context Aware Services in Smart Environments

This thesis deals with Context Aware Services, Smart Environments, Context Management and solutions for Devices and Service Interoperability. Multi-vendor devices offer an increasing number of services and end-user applications that base their value on the ability to exploit the information originating from the surrounding environment by means of an increasing number of embedded sensors, e.g. GPS, compass, RFID readers, cameras and so on. However, usually such devices are not able to exchange information because of the lack of a shared data storage and common information exchange methods. A large number of standards and domain specific building blocks are available and are heavily used in today's products. However, the use of these solutions based on ready-to-use modules is not without problems. The integration and cooperation of different kinds of modules can be daunting because of growing complexity and dependency. In this scenarios it might be interesting to have an infrastructure that makes the coexistence of multi-vendor devices easy, while enabling low cost development and smooth access to services. This sort of technologies glue should reduce both software and hardware integration costs by removing the trouble of interoperability. The result should also lead to faster and simplified design, development and, deployment of cross-domain applications. This thesis is mainly focused on SW architectures supporting context aware service providers especially on the following subjects: - user preferences service adaptation - context management - content management - information interoperability - multivendor device interoperability - communication and connectivity interoperability Experimental activities were carried out in several domains including Cultural Heritage, indoor and personal smart spaces – all of which are considered significant test-beds in Context Aware Computing. The work evolved within european and national projects: on the europen side, I carried out my research activity within EPOCH, the FP6 Network of Excellence on “Processing Open Cultural Heritage” and within SOFIA, a project of the ARTEMIS JU on embedded systems. I worked in cooperation with several international establishments, including the University of Kent, VTT (the Technical Reserarch Center of Finland) and Eurotech. On the national side I contributed to a one-to-one research contract between ARCES and Telecom Italia. The first part of the thesis is focused on problem statement and related work and addresses interoperability issues and related architecture components. The second part is focused on specific architectures and frameworks: - MobiComp: a context management framework that I used in cultural heritage applications - CAB: a context, preference and profile based application broker which I designed within EPOCH Network of Excellence - M3: "Semantic Web based" information sharing infrastructure for smart spaces designed by Nokia within the European project SOFIA - NoTa: a service and transport independent connectivity framework - OSGi: the well known Java based service support framework The final section is dedicated to the middleware, the tools and, the SW agents developed during my Doctorate time to support context-aware services in smart environments.

The California current predator diet database: synthesis of common forage species

Characterization of the diets of upper-trophic predators is a key ingredient in management including the development of ecosystem-based fishery management plans, conservation efforts for top predators, and ecological and economic modeling of predator prey interactions. The California Current Predator Diet Database (CCPDD) synthesizes data from published records of predator food habits over the past century. The database includes diet information for 100+ upper-trophic level predator species, based on over 200 published citations from the California Current region of the Pacific Ocean, ranging from Baja, Mexico to Vancouver Island, Canada. We include diet data for all predators that consume forage species: seabirds, cetaceans, pinnipeds, bony and cartilaginous fishes, and a predatory invertebrate; data represent seven discrete geographic regions within the CCS (Canada, WA, OR, CA-n, CA-c, CA-s, Mexico). The database is organized around predator-prey links that represent an occurrence of a predator eating a prey or group of prey items. Here we present synthesized data for the occurrence of 32 forage species (see Table 2 in the affiliated paper) in the diet of pelagic predators (currently submitted to Ecological Informatics). Future versions of the shared-data will include diet information for all prey items consumed, not just the forage species of interest.

Implications of query caching for JXTA peers

This dissertation studies the caching of queries and how to cache in an efficient way, so that retrieving previously accessed data does not need any intermediary nodes between the data-source peer and the querying peer in super-peer P2P network. A precise algorithm was devised that demonstrated how queries can be deconstructed to provide greater flexibility for reusing their constituent elements. It showed how subsequent queries can make use of more than one previous query and any part of those queries to reconstruct direct data communication with one or more source peers that have supplied data previously. In effect, a new query can search and exploit the entire cached list of queries to construct the list of the data locations it requires that might match any locations previously accessed. The new method increases the likelihood of repeat queries being able to reuse earlier queries and provides a viable way of by-passing shared data indexes in structured networks. It could also increase the efficiency of unstructured networks by reducing traffic and the propensity for network flooding. In addition, performance evaluation for predicting query routing performance by using a UML sequence diagram is introduced. This new method of performance evaluation provides designers with information about when it is most beneficial to use caching and how the peer connections can optimize its exploitation.

Software Components for Serious Game Development

The large upfront investments required for game development pose a severe barrier for the wider uptake of serious games in education and training. Also, there is a lack of well-established methods and tools that support game developers at preserving and enhancing the games’ pedagogical effectiveness. The RAGE project, which is a Horizon 2020 funded research project on serious games, addresses these issues by making available reusable software components that aim to support the pedagogical qualities of serious games. In order to easily deploy and integrate these game components in a multitude of game engines, platforms and programming languages, RAGE has developed and validated a hybrid component-based software architecture that preserves component portability and interoperability. While a first set of software components is being developed, this paper presents selected examples to explain the overall system’s concept and its practical benefits. First, the Emotion Detection component uses the learners’ webcams for capturing their emotional states from facial expressions. Second, the Performance Statistics component is an add-on for learning analytics data processing, which allows instructors to track and inspect learners’ progress without bothering about the required statistics computations. Third, a set of language processing components accommodate the analysis of textual inputs of learners, facilitating comprehension assessment and prediction. Fourth, the Shared Data Storage component provides a technical solution for data storage - e.g. for player data or game world data - across multiple software components. The presented components are exemplary for the anticipated RAGE library, which will include up to forty reusable software components for serious gaming, addressing diverse pedagogical dimensions.

Type-Aware Programming Models for Distributed Applications

Thesis (Ph.D.)--University of Washington, 2016-08

Energy Efficiency of Software Transactional Memory in a Heterogeneous Architecture

Hardware vendors make an important effort creating low-power CPUs that keep battery duration and durability above acceptable levels. In order to achieve this goal and provide good performance-energy for a wide variety of applications, ARM designed the big.LITTLE architecture. This heterogeneous multi-core architecture features two different types of cores: big cores oriented to performance and little cores, slower and aimed to save energy consumption. As all the cores have access to the same memory, multi-threaded applications must resort to some mutual exclusion mechanism to coordinate the access to shared data by the concurrent threads. Transactional Memory (TM) represents an optimistic approach for shared-memory synchronization. To take full advantage of the features offered by software TM, but also benefit from the characteristics of the heterogeneous big.LITTLE architectures, our focus is to propose TM solutions that take into account the power/performance requirements of the application and what it is offered by the architecture. In order to understand the current state-of-the-art and obtain useful information for future power-aware software TM solutions, we have performed an analysis of a popular TM library running on top of an ARM big.LITTLE processor. Experiments show, in general, better scalability for the LITTLE cores for most of the applications except for one, which requires the computing performance that the big cores offer.

Implementation for spatial data of the shared nearest neighbour with metric data structures

Dissertação para obtenção do Grau de Mestre em Engenharia Informática

Fedora 4 as a Shared Linked Data repository for the Art Institute of Chicago Collections

Presentation at Open Repositories 2014, Helsinki, Finland, June 9-13, 2014