Upgrading a TCABR data analysis and acquisition system for remote participation using Java, XML, RCP and modern client/server communication/authentication

The TCABR data analysis and acquisition system has been upgraded to support a joint research programme using remote participation technologies. The architecture of the new system uses Java language as programming environment. Since application parameters and hardware in a joint experiment are complex with a large variability of components, requirements and specification solutions need to be flexible and modular, independent from operating system and computer architecture. To describe and organize the information on all the components and the connections among them, systems are developed using the extensible Markup Language (XML) technology. The communication between clients and servers uses remote procedure call (RPC) based on the XML (RPC-XML technology). The integration among Java language, XML and RPC-XML technologies allows to develop easily a standard data and communication access layer between users and laboratories using common software libraries and Web application. The libraries allow data retrieval using the same methods for all user laboratories in the joint collaboration, and the Web application allows a simple graphical user interface (GUI) access. The TCABR tokamak team in collaboration with the IPFN (Instituto de Plasmas e Fusao Nuclear, Instituto Superior Tecnico, Universidade Tecnica de Lisboa) is implementing this remote participation technologies. The first version was tested at the Joint Experiment on TCABR (TCABRJE), a Host Laboratory Experiment, organized in cooperation with the IAEA (International Atomic Energy Agency) in the framework of the IAEA Coordinated Research Project (CRP) on ""Joint Research Using Small Tokamaks"". (C) 2010 Elsevier B.V. All rights reserved.

GRASSIUS: A Platform for Comparative Regulatory Genomics across the Grasses

Transcription factors (TFs) are major players in gene regulatory networks and interactions between TFs and their target genes furnish spatiotemporal patterns of gene expression. Establishing the architecture of regulatory networks requires gathering information on TFs, their targets in the genome, and the corresponding binding sites. We have developed GRASSIUS (Grass Regulatory Information Services) as a knowledge-based Web resource that integrates information on TFs and gene promoters across the grasses. In its initial implementation, GRASSIUS consists of two separate, yet linked, databases. GrassTFDB holds information on TFs from maize (Zea mays), sorghum (Sorghum bicolor), sugarcane (Saccharum spp.), and rice (Oryza sativa). TFs are classified into families and phylogenetic relationships begin to uncover orthologous relationships among the participating species. This database also provides a centralized clearinghouse for TF synonyms in the grasses. GrassTFDB is linked to the grass TFome collection, which provides clones in recombination-based vectors corresponding to full-length open reading frames for a growing number of grass TFs. GrassPROMDB contains promoter and cis-regulatory element information for those grass species and genes for which enough data are available. The integration of GrassTFDB and GrassPROMDB will be accomplished through GrassRegNet as a first step in representing the architecture of grass regulatory networks. GRASSIUS can be accessed from www.grassius.org.

Nanoparticle Platform to Modulate Reaction Mechanism of Phenothiazine Photosensitizers

Herein, we report on the synthesis of photosensitizing nanoparticles in which the generation of different oxidizing species, i.e., singlet oxygen ((1)O(2)) or radicals, was modulated. Sol gel and surface chemistry were used to obtain nanoparticles with specific ratios of dimer to monomer species of phenothiazine photosensitizers (PSs). Due to competition between the reactions involving electron transfer within dimer species and energy transfer from monomer triplets to oxygen, the efficiency of (1)O(2) generation could be controlled. Nanoparticles with an excess of dimer have an (1)O(2) generation efficiency (S(Delta)) of 0.01 while those without dimer have a S, value of 0.4. Furthermore, we demonstrate that the PS properties of the nanoparticles are not subjected to interference from the external medium as is commonly the case for free PSs, i.e., PS ground and triplet states are not reduced by NADH and ascorbate, respectively, and singlet excited states are less suppressed by bromide. The modulated (1)O(2) generation and the PS protection from external interferences make this nanoparticle platform a promising tool to aid in performing mechanistic studies in biological systems. Also, it offers potential application in technological areas in which photo-induced processes take place.

Systemintegration mellan Java och VB.NET med webservices

I dagens näringsliv är effektiv kommunikation och informationsutbyte mellan företag en förutsättning för verksamheten. Näringslivet utmärks av förändring; företag köps upp, företag slås samman, företag samarbetar i projektform. Behovet av att integrera varandras informationssystem står i paritet med ovanstående förändringar. Ett stort problem med systemintegration är variationsrikedomen mellan informationssystemen, beträffande teknisk plattform och programspråk. Webservices erbjuder metoder att enkelt integrera olika informationssystem med varandra.I rapporten beskrivs hur webservices implementeras och vilka tekniska komponenter som ingår, samt de fördelar som webservicetekniken ger. Uppdraget från Sogeti, Borlänge var att designa och implementera en prototyp, i vilken klientapplikationer i Java och VB.NET integreras med varandra genom webservices i respektive programspråk. För analys och design har metoden UML använts. Slutsatsen av rapporten är att Java och VB.NET kan kommunicera med varandra genom webserviceteknik. Dock är integrationen mellan de två programspråken inte okomplicerad. Detta leder till slutsatsen att webservicetekniken måste standardiseras för att få ordentligt genomslag som teknik för systemintegration mellan olika programspråk.

Separation and Execution of graphical engine on a cross platform IDE to enhance performance

“Biosim” is a simulation software which works to simulate the harvesting system.This system is able to design a model for any logistic problem with the combination of several objects so that the artificial system can show the performance of an individual model. The system will also describe the efficiency, possibility to be chosen for real life application of that particular model. So, when any one wish to setup a logistic model like- harvesting system, in real life he/she may be noticed about the suitable prostitution for his plants and factories as well as he/she may get information about the least number of objects, total time to complete the task, total investment required for his model, total amount of noise produced for his establishment in advance. It will produce an advance over view for his model. But “Biosim” is quite slow .As it is an object based system, it takes long time to make its decision. Here the main task is to modify the system so that it can work faster than the previous. So, the main objective of this thesis is to reduce the load of “Biosim” by making some modification of the original system as well as to increase its efficiency. So that the whole system will be faster than the previous one and performs more efficiently when it will be applied in real life. Theconcept is to separate the execution part of ”Biosim” form its graphical engine and run this separated portion in a third generation language platform. C++ is chosenhere as this external platform. After completing the proposed system, results with different models have been observed. The results show that, for any type of plants of fields, for any number of trucks, the proposed system is faster than the original system. The proposed system takes at least 15% less time “Biosim”. The efficiency increase with the complexity of than the original the model. More complex the model, more efficient the proposed system is than original “Biosim”.Depending on the complexity of a model, the proposed system can be 56.53 % faster than the original “Biosim”.

BDI4JADE: a BDI layer on top of JADE

Several agent platforms that implement the belief-desire-intention (BDI) architecture have been proposed. Even though most of them are implemented based on existing general purpose programming languages, e.g. Java, agents are either programmed in a new programming language or Domain-specific Language expressed in XML. As a consequence, this prevents the use of advanced features of the underlying programming language and the integration with existing libraries and frameworks, which are essential for the development of enterprise applications. Due to these limitations of BDI agent platforms, we have implemented the BDI4JADE, which is presented in this paper. It is implemented as a BDI layer on top of JADE, a well accepted agent platform.

GULF OF MEXICO'S OFFSHORE OIL PLATFORM WIND POTENTIAL

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Gulf of Mexico's Offshore Oil Platform Wind Potential

There are over 6000 natural resource drilling platforms in the Gulf of Mexico, all of which will become obsolete once their deposits are extracted. This study examined one of the possible alternate uses for these platforms, wind power potential. Using ArcGIS the number of platforms was reduced by weighting their distance from National Data Buoy Center wind speed collection points and water depth. Calculations were done to assess the optimal sites remaining, as well as provide an estimate of the energy potential for each site. Data for this project was obtained from the Minerals Management Service (MMS), United States Geological Service (USGS), and National Data Buoy Center (NDBC). A major limitation of this project was a lack of NDBC wind speed buoys, creating large data gaps and excluding many oil rigs that have otherwise high energy potential.

Implementação de objetos replicados usando java

Este trabalho busca a implementação da replicação de objetos através da linguagem Java e de seu sistema de invocação remota de métodos (Remote Method Invocation - RMI). A partir deste sistema, define-se uma classe de replicação - a máquina de replicação – onde a implementação de grupos de objetos é estruturada de acordo com a arquitetura cliente/servidor, sendo o cliente o representante (a interface) de um grupo de objetos e os servidores representam os demais componentes do grupo. A classe de replicação atende a uma necessidade importante dos sistemas distribuídos - o desenvolvimento de aplicações tolerantes a falhas. Fundamentalmente, a tolerância a falhas é obtida por redundância e, no caso de mecanismos de tolerância a falhas por software, esta redundância significa basicamente replicação de dados, processos ou objetos. A tolerância a falhas para tal tipo de sistema é importante para garantir a transparência do mesmo, visto que, assim como um sistema distribuído pode auxiliar muito o usuário pelas facilidades oferecidas, o não cumprimento de suas atividades de acordo com o esperado pode, em algumas situações, causar-lhe transtornos e erros irrecuperáveis nas aplicações. Finalmente, como principal contribuição, este trabalho descreve e implementa a solução completa para a construção de uma biblioteca de classes que oferece a replicação de forma totalmente transparente para o usuário.

Implementação de um sistema de síntese de alto nível baseado em modelos java

Este trabalho apresenta uma metodologia para a geração automática de ASICs, em VHDL, a partir da linguagem de entrada Java. Como linguagem de especificação adotou-se a Linguagem Java por esta possuir características desejáveis para especificação a nível de sistema, como: orientação a objetos, portabilidade e segurança. O sistema é especificamente projetado para suportar síntese de ASICs a partir dos modelos de computação Máquina de Estados Finita e Pipeline. Neste trabalho, adotou-se estes modelos de computação por serem mais usados em sistemas embarcados As principais características exploradas são a disponibilização da geração de ASICs para a ferramenta SASHIMI, o alto nível de abstração com que o projetista pode contar em seu projeto, as otimizações de escalonamento realizadas automaticamente, e o sistema ser capaz de abstrair diferentes modelos de computação para uma descrição em VHDL. Portanto, o ambiente permite a redução do tempo de projeto e, consequentemente, dos custos agregados, diminuindo a probabilidade de erros na elaboração do projeto, portabilidade e reuso de código – através da orientação a objetos de Java – podendo-se proteger os investimentos prévios em desenvolvimento de software. A validação desses conceitos foi realizada mediante estudos de casos, utilizando-se algumas aplicações e analisando os resultados obtidos com a geração dos ASICs.