MIA - a free and open source software for gray scale medical image analysis

Background Gray scale images make the bulk of data in bio-medical image analysis, and hence, the main focus of many image processing tasks lies in the processing of these monochrome images. With ever improving acquisition devices, spatial and temporal image resolution increases, and data sets become very large. Various image processing frameworks exists that make the development of new algorithms easy by using high level programming languages or visual programming. These frameworks are also accessable to researchers that have no background or little in software development because they take care of otherwise complex tasks. Specifically, the management of working memory is taken care of automatically, usually at the price of requiring more it. As a result, processing large data sets with these tools becomes increasingly difficult on work station class computers. One alternative to using these high level processing tools is the development of new algorithms in a languages like C++, that gives the developer full control over how memory is handled, but the resulting workflow for the prototyping of new algorithms is rather time intensive, and also not appropriate for a researcher with little or no knowledge in software development. Another alternative is in using command line tools that run image processing tasks, use the hard disk to store intermediate results, and provide automation by using shell scripts. Although not as convenient as, e.g. visual programming, this approach is still accessable to researchers without a background in computer science. However, only few tools exist that provide this kind of processing interface, they are usually quite task specific, and don’t provide an clear approach when one wants to shape a new command line tool from a prototype shell script. Results The proposed framework, MIA, provides a combination of command line tools, plug-ins, and libraries that make it possible to run image processing tasks interactively in a command shell and to prototype by using the according shell scripting language. Since the hard disk becomes the temporal storage memory management is usually a non-issue in the prototyping phase. By using string-based descriptions for filters, optimizers, and the likes, the transition from shell scripts to full fledged programs implemented in C++ is also made easy. In addition, its design based on atomic plug-ins and single tasks command line tools makes it easy to extend MIA, usually without the requirement to touch or recompile existing code. Conclusion In this article, we describe the general design of MIA, a general purpouse framework for gray scale image processing. We demonstrated the applicability of the software with example applications from three different research scenarios, namely motion compensation in myocardial perfusion imaging, the processing of high resolution image data that arises in virtual anthropology, and retrospective analysis of treatment outcome in orthognathic surgery. With MIA prototyping algorithms by using shell scripts that combine small, single-task command line tools is a viable alternative to the use of high level languages, an approach that is especially useful when large data sets need to be processed.

Self-Organizing Architectural design based on Morphogenetic Programming.

In this paper, we present our research into self-organizing building algorithms. This idea of self-organization of animal/plants behaviour interests researchers to explore the mechanisms required for this emergent phenomena and try to apply them in other domains. We were able to implement a typical construction algorithm in a 3D simulation environment and reproduce the results of previous research in the area. LSystems, morphogenetic programming and wasp nest building are explained in order to understand self-organizing models. We proposed Grammatical swarm as a good tool to optimize building structures.

A vision-based strategy for autonomous aerial refueling tasks

Autonomous aerial refueling is a key enabling technology for both manned and unmanned aircraft where extended flight duration or range are required. The results presented within this paper offer one potential vision-based sensing solution, together with a unique test environment. A hierarchical visual tracking algorithm based on direct methods is proposed and developed for the purposes of tracking a drogue during the capture stage of autonomous aerial refueling, and of estimating its 3D position. Intended to be applied in real time to a video stream from a single monocular camera mounted on the receiver aircraft, the algorithm is shown to be highly robust, and capable of tracking large, rapid drogue motions within the frame of reference. The proposed strategy has been tested using a complex robotic testbed and with actual flight hardware consisting of a full size probe and drogue. Results show that the vision tracking algorithm can detect and track the drogue at real-time frame rates of more than thirty frames per second, obtaining a robust position estimation even with strong motions and multiple occlusions of the drogue.

Estudio preliminar acerca del uso de protocolos y actos comunicativos FIPA en el sistema COMPUTAPLEX

Este trabajo corresponde con la implementación de componentes software dentro de la Plataforma COMPUTAPLEX, la cual tiene como objetivo facilitar a los investigadores la realización de tareas del proceso experimental de ingeniería de software. Uno de los aportes a esta plataforma tecnológica corresponde con el desarrolló de los componentes necesarios para la recuperación de datos experimentales disponibles en diversas fuentes de datos, para ello se hizo uso de un mecanismo capaz de unificar la extracción de información de MySQL, ficheros excel y ficheros SPSS. Con ello diferentes grupos de investigación asociados pueden compartir y tener acceso a repositorios experimentales que se mantienen tanto de manera local como externa. Por otra parte, se ha realizado un estudio de la tecnología de agentes en la que se describe sus definiciones, lenguajes de comunicación, especificación FIPA, JADE como implementación FIPA y parser XML. Además para este trabajo se ha definido e implementado una ontología de comunicación entre agentes, la misma que fue diseñada en la herramienta Protégé. En lo que se refiere al desarrollo de componentes se hizo uso de una amplía variedad de tecnologías que incluye lenguaje de programación Java, framework JADE para el desarrollo de agentes, librería JENA para manejo de ontologías, librería SAXParser para lectura de archivos XML y patrón de diseño Factory. Finalmente se describe la metodología de trabajo utilizada en el proyecto, la cual por medio de la realización de varios ciclos iterativos permitió obtener prototipos que poco a poco fueron cubriendo las necesidades del producto software.----ABSTRACT---- This work relates to the implementation of software components within the platform Computaplex, which aims to enable researchers to conduct experimental software engineering process tasks. One of the contributions to this platform technology corresponds to the development of components which are necessary for the recovery of experimental data available in different data sources, to archive this goal a mechanism able to unify the extraction of information from MySQL, Excel and SPSS files was made. Therefore, associated research groups can share and access experimental repositories that remain both locally and externally. Moreover, it has been conducted a study of agent technology in its definition is described, languages communication, FIPA, JADE and FIPA implementation and XML parser. In addition to this work, it has been defined and implemented an ontology for communication between agents, the same as was designed in the Protégé tool. In what refers to the development of components, a wide range of technologies have been made which includes Java programming language, framework JADE for agent development, JENA library for handling ontologies, SAXParser for reading XML files and Factory design pattern. Finally, describing the work methodology used in this project, which through the implementation of several iterative cycles allowed to obtain prototypes were gradually meeting the needs of the software product.

Simulación de seguimiento de blancos en sistemas radar. Parte 2

El proyecto consiste en el diseño y estudio de un software cuyas prestaciones estén orientadas a gestionar una simulación de un sistema de radar. El prototipo de este entorno de simulación se ha realizado en el lenguaje Matlab debido a que inicialmente se considera el más adecuado para el tratamiento de las señales que los sistemas de radar manejan para realizar sus cálculos. Se ha escogido como modelo el software desarrollado por la compañía SAP para gestionar los E.R.P.s de grandes empresas. El motivo es que es un software cuyo diseño y funcionalidad es especialmente adecuado para la gestión ordenada de una cantidad grande de datos diversos de forma integrada. Diseñar e implementar el propio entorno es una tarea de enorme complejidad y que requerirá el esfuerzo de una cantidad importante de personas; por lo que este proyecto se ha limitado, a un prototipo básico con una serie de características mínimas; así como a indicar y dejar preparado el camino por el que deberán transcurrir las futuras agregaciones de funcionalidad o mejoras. Funcionalmente, esto es, independientemente de la implementación específica con la que se construya el entorno de simulación, se ha considerado dividir las características y prestaciones ofrecidas por el sistema en bloques. Estos bloques agruparán los componentes relacionados con un aspecto específico de la simulación, por ejemplo, el bloque 1, es el asignado a todo lo relacionado con el blanco a detectar. El usuario del entorno de simulación interactuará con el sistema ejecutando lo que se llaman transacciones, que son agrupaciones lógicas de datos a introducir/consultar en el sistema relacionados y que se pueden ejecutar de forma independiente. Un ejemplo de transacción es la que permite mantener una trayectoria de un blanco junto con sus parámetros, pero también puede ser una transacción la aplicación que permite por ejemplo, gestionar los usuarios con acceso al entorno. Es decir, las transacciones son el componente mínimo a partir del cual el usuario puede interactuar con el sistema. La interfaz gráfica que se le ofrecerá al usuario, está basada en modos, que se pueden considerar “ventanas” independientes entre sí dentro de las cuáles el usuario ejecuta sus transacciones. El usuario podrá trabajar con cuantos modos en paralelo desee y cambiar según desee entre ellos. La programación del software se ha realizado utilizando la metodología de orientación a objetos y se ha intentado maximizar la reutilización del código así como la configurabilidad de su funcionalidad. Una característica importante que se ha incorporado para garantizar la integridad de los datos es un diccionario sintáctico. Para permitir la persistencia de los datos entre sesiones del usuario se ha implementado una base de datos virtual (que se prevé se reemplace por una real), que permite manejar, tablas, campos clave, etc. con el fin de guardar todos los datos del entorno, tanto los de configuración que solo serían responsabilidad de los administradores/desarrolladores como los datos maestros y transaccionales que serían gestionados por los usuarios finales del entorno de simulación. ABSTRACT. This end-of-degree project comprises the design, study and implementation of a software based application able to simulate the various aspects and performance of a radar system. A blueprint for this application has been constructed upon the Matlab programming language. This is due to the fact that initially it was thought to be the one most suitable to the complex signals radar systems usually process; but it has proven to be less than adequate for all the other core processes the simulation environment must provide users with. The software’s design has been based on another existing software which is the one developed by the SAP company for managing enterprises, a software categorized (and considered the paradigm of) as E.R.P. software (E.R.P. stands for Enterprise Resource Planning). This software has been selected as a model because is very well suited (its basic features) for working in an orderly fashion with a pretty good quantity of data of very diverse characteristics, and for doing it in a way which protects the integrity of the data. To design and construct the simulation environment with all its potential features is a pretty hard task and requires a great amount of effort and work to be dedicated to its accomplishment. Due to this, the scope of this end-of-degree project has been focused to design and construct a very basic prototype with minimal features, but which way future developments and upgrades to the systems features should go has also been pointed. In a purely functional approach, i.e. disregarding completely the specific implementation which accomplishes the simulation features, the different parts or aspects of the simulation system have been divided and classified into blocks. The blocks will gather together and comprise the various components related with a specific aspect of the simulation landscape, for example, block number one will be the one dealing with all the features related to the radars system target. The user interaction with the system will be based on the execution of so called transactions, which essentially consist on bunches of information which logically belong together and can thus be managed together. A good example, could be a transaction which permits to maintain a series of specifications for target’s paths; but it could also be something completely unrelated with the radar system itself as for example, the management of the users who can access the system. Transactions will be thus the minimum unit of interaction of users with the system. The graphic interface provided to the user will be mode based, which can be considered something akin to a set of independent windows which are able on their own to sustain the execution of an independent transaction. The user ideally should be able to work with as many modes simultaneously as he wants to, switching his focus between them at will. The approach to the software construction has been based on the object based paradigm. An effort has been made to maximize the code’s reutilization and also in maximizing its customizing, i.e., same sets of code able to perform different tasks based on configuration data. An important feature incorporated to the software has been a data dictionary (a syntactic one) which helps guarantee data integrity. Another important feature that allow to maintain data persistency between user sessions, is a virtual relational data base (which should in future times become a real data base) which allows to store data in tables. The data store in this tables comprises both the system’s configuration data (which administrators and developers will maintain) and also master and transactional data whose maintenance will be the end users task.

A dynamic programming approach to the formulation and solution of finite element equations

A method for formulating and algorithmically solving the equations of finite element problems is presented. The method starts with a parametric partition of the domain in juxtaposed strips that permits sweeping the whole region by a sequential addition (or removal) of adjacent strips. The solution of the difference equations constructed over that grid proceeds along with the addition removal of strips in a manner resembling the transfer matrix approach, except that different rules of composition that lead to numerically stable algorithms are used for the stiffness matrices of the strips. Dynamic programming and invariant imbedding ideas underlie the construction of such rules of composition. Among other features of interest, the present methodology provides to some extent the analyst's control over the type and quantity of data to be computed. In particular, the one-sweep method presented in Section 9, with no apparent counterpart in standard methods, appears to be very efficient insofar as time and storage is concerned. The paper ends with the presentation of a numerical example

Generador de exámenes de test aleatorio

En este documento se detalla, la planificación y elaboración de un paquete que respeta el estándar S4 de programación en lenguaje R. El paquete consiste en una serie de métodos y clases para la generación de exámenes tipos test y soluciones a partir de un archivo xls, que hace las funciones de una base de datos. El diseño propuesto está orientado a objetos y desarrolla un conjunto de clases que representan los contenidos de una prueba de evaluación tipo test: enunciados, peguntas y respuestas. Se ha realizado una implementación sencilla de un prototipo con las funciones básicas necesarias para generar los tests. Además se ha generado la documentación necesaria para crear el paquete, esto significa que cada método tiene una página de ayuda, que se podrá consultar desde un terminal con R, dicha documentación incluye ejemplos de ejecución de cada método.---ABSTRACT---In this document is detailed the elaboration and development of a package that meets the standard S4 of programming language R. This package consists of a group of methods and classes used for the generation of test exams and their solutions starting from a xls format file wich plays the role of a data base at the same time. These classes have been grouped in a way that the user could have a complete and easy vision of them. This division has been done by using data storage and functions whose tasks are more or less the same. Furthermore, the necessary documentation to create this package has also been generated, that means that every method has a help page wich can be called from a R terminal if necessary. This documentation has examples of the execution of every method.

Gramáticas lógicas: resolución de problemas en lenguaje natural

Esta tesis tiene por objeto estudiar las posibilidades de realizar en castellano tareas relativas a la resolución de problemas con sistemas basados en el conocimiento. En los dos primeros capítulos se plantea un análisis de la trayectoria seguida por las técnicas de tratamiento del lenguaje natural, prestando especial interés a los formalismos lógicos para la comprensión del lenguaje. Seguidamente, se plantea una valoración de la situación actual de los sistemas de tratamiento del lenguaje natural. Finalmente, se presenta lo que constituye el núcleo de este trabajo, un sistema llamado Sirena, que permite realizar tareas de adquisición, comprensión, recuperación y explicación de conocimiento en castellano con sistemas basados en el conocimiento. Este sistema contiene un subconjunto del castellano amplio pero simple formalizado con una gramática lógica. El significado del conocimiento se basa en la lógica y ha sido implementado en el lenguaje de programación lógica Prolog II vS. Palabras clave: Programación Lógica, Comprensión del Lenguaje Natural, Resolución de Problemas, Gramáticas Lógicas, Lingüistica Computacional, Inteligencia Artificial.---ABSTRACT---The purpose of this thesis is to study the possibi1 ities of performing in Spanish problem solving tasks with knowledge based systems. Ule study the development of the techniques for natural language processing with a particular interest in the logical formalisms that have been used to understand natural languages. Then, we present an evaluation of the current state of art in the field of natural language processing systems. Finally, we introduce the main contribution of our work, Sirena a system that allows the adquisition, understanding, retrieval and explanation of knowledge in Spanish with knowledge based systems. Sirena can deal with a large, although simple» subset of Spanish. This subset has been formalised by means of a logic grammar and the meaning of knowledge is based on logic. Sirena has been implemented in the programming language Prolog II v2. Keywords: Logic Programming, Understanding Natural Language, Problem Solving, Logic Grammars, Cumputational Linguistic, Artificial Intelligence.

Quality-optimization algorithm based on stochastic dynamic programming for MPEG DASH video streaming

In contrast to traditional push-based protocols, adaptive streaming techniques like Dynamic Adaptive Streaming over HTTP (DASH) fix attention on the client, who dynamically requests different-quality portions of the content to cope with a limited and variable bandwidth but aiming at maximizing the quality perceived by the user. Since DASH adaptation logic at the client is not covered by the standard, we propose a solution based on Stochastic Dynamic Programming (SDP) techniques to find the optimal request policies that guarantee the users' Quality of Experience (QoE). Our algorithm is evaluated in a simulated streaming session and is compared with other adaptation approaches. The results show that our proposal outperforms them in terms of QoE, requesting higher qualities on average.

Análisis de sistemas eléctricos en microsatélites. Desarrollo de módulos para una Concurrent Design Facility (CFD)para el desarrollo y análisis de misiones espaciales = Analysis of microsatellites power subsystems (battery testing). Development and programming of a new Propulsion Module for a space mission Concurrent Design Facility (CDF)

El objetivo de este proyecto es recoger y explicar el conjunto de tareas realizadas durante el proceso de colaboración llevado a cabo en el Instituto de Microgravedad “Ignacio Da Riva” durante el curso académico 2014/2015, las cuales han conformado las prácticas externas cursadas en la titulación de Grado en Ingeniería Aeroespacial, y el Trabajo de Fin de Grado de la misma titulación. En este documento se pretende,además, poner de manifiesto la rigurosidad con la que se trabaja en el ámbito espacial y la importancia de los protocolos y procedimientos para asegurar un resultado adecuado en los trabajos realizados. Una parte importante del proyecto detalla los procesos de monitorización y mantenimiento de la batería del satélite universitario UPMSat-2 cuyo lanzamiento está previsto para el año próximo y el cual será el segundo satélite del mundo en incorporar una batería de Ión-Litio.

Análisis de sistemas eléctricos en microsatélites. Desarrollo de módulos para una Concurrent Design Facility (CDF) para desarrollo y análisis de misiones espaciales = Analysis of microsatellites power subsystems (battery testing). Development and programming of a new Orbit Design Module for a space mission Concurrent Design Facility (CDF)

El presente proyecto se ha realizado durante las prácticas curriculares que han tenido lugar en el Instituto Universitario de Microgravedad “Ignacio Da Riva” (IDR/UPM). A lo largo de estas prácticas se han llevado a cabo trabajos en diversos campos, todos relacionados con el UPMSat-2, desde el subsistema de potencia (placas solares y baterías) hasta el desarrollo de módulos para la Sala de Diseño Concurrente (Concurrent Design Facility, CDF). En la realización de las mismas se ha trabajado en equipo, junto con otros dos alumnos. El objetivo del proyecto es recopilar las tareas realizadas, proporcionando el desarrollo teórico necesario para llevar a cabo todas ellas. Al ser un trabajo con varias partes claramente diferenciadas, se ha optado por comenzar con unas páginas dedicadas a las misiones espaciales. A continuación el trabajo se adentra en el subsistema de potencia de un satélite, particularizando para el UPMSat-2. Finalmente, se proporciona la teoría necesaria para el desarrollo del módulo de misión de la CDF del IDR/UPM, software que se ha desarrollado y tiene reservado un espacio al final, en el cual se describe el programa y se realizan comparaciones de los resultados que proporciona frente a casos reales.

Análisis en sistemas eléctricos en microsatélites. Desarrollo de módulos para una Concurrent Design Facility (CDF) para desarrollo y análisis de misiones espaciales = Analysis of microsatellites power subsystems (battery testing). Development and programming of a new Orbit Design Module for a space mission Concurrent Design Facility (CDF)

El objetivo de este trabajo de fin de grado es la exposición de los resultados y conclusiones, fruto de las tareas desarrolladas durante las practicas curriculares en el Instituto Universitario de Microgravedad “Ignacio Da Riva” (IDR/UPM) el presente curso académico. La estructura del trabajo se compone de dos bloques diferenciados entre sí: el seguimiento de una batería y el desarrollo de un módulo para una CDF.

A Fuzzy approach based on dynamic programming and metaheuristics for selecting safeguards for risk management for information systems

In this paper we focus on the selection of safeguards in a fuzzy risk analysis and management methodology for information systems (IS). Assets are connected by dependency relationships, and a failure of one asset may affect other assets. After computing impact and risk indicators associated with previously identified threats, we identify and apply safeguards to reduce risks in the IS by minimizing the transmission probabilities of failures throughout the asset network. However, as safeguards have associated costs, the aim is to select the safeguards that minimize costs while keeping the risk within acceptable levels. To do this, we propose a dynamic programming-based method that incorporates simulated annealing to tackle optimizations problems.

Red Eléctrica de España uses integer programming for annual salary revisions

In this paper, we present a mixed-integer linear programming model for determining salary-revision matrices for an organization based on that organization?s general strategies. The solution obtained from this model consists of salary increases for each employee; these increases consider the employee?s professional performance, salary level relative to peers within the organization, and professional group. In addition to budget constraints, we modeled other elements typical of compensation systems, such as equity and justice. Red Eléctrica de España (REE), the transmission agent and operator of the Spanish electricity system, used the model to revise its 2010 and 2011 salary policies, and achieved results that were aligned with the company strategy. REE incorporated the model into the salary management module within its information system, and plans to continue to use the model in revisions of the module.

Optimization methods for the operating room management under uncertainty: stochastic programming vs. decomposition approach

The operating theatres are the engine of the hospitals; proper management of the operating rooms and its staff represents a great challenge for managers and its results impact directly in the budget of the hospital. This work presents a MILP model for the efficient schedule of multiple surgeries in Operating Rooms (ORs) during a working day. This model considers multiple surgeons and ORs and different types of surgeries. Stochastic strategies are also implemented for taking into account the uncertain in surgery durations (pre-incision, incision, post-incision times). In addition, a heuristic-based methods and a MILP decomposition approach is proposed for solving large-scale ORs scheduling problems in computational efficient way. All these computer-aided strategies has been implemented in AIMMS, as an advanced modeling and optimization software, developing a user friendly solution tool for the operating room management under uncertainty.