Digital Ecosystems: Ecosystem-Oriented Architectures

We view Digital Ecosystems to be the digital counterparts of biological ecosystems. Here, we are concerned with the creation of these Digital Ecosystems, exploiting the self-organising properties of biological ecosystems to evolve high-level software applications. Therefore, we created the Digital Ecosystem, a novel optimisation technique inspired by biological ecosystems, where the optimisation works at two levels: a first optimisation, migration of agents which are distributed in a decentralised peer-to-peer network, operating continuously in time; this process feeds a second optimisation based on evolutionary computing that operates locally on single peers and is aimed at finding solutions to satisfy locally relevant constraints. The Digital Ecosystem was then measured experimentally through simulations, with measures originating from theoretical ecology, evaluating its likeness to biological ecosystems. This included its responsiveness to requests for applications from the user base, as a measure of the ecological succession (ecosystem maturity). Overall, we have advanced the understanding of Digital Ecosystems, creating Ecosystem-Oriented Architectures where the word ecosystem is more than just a metaphor.Comment: 39 pages, 26 figures, journa

Born to learn: The inspiration, progress, and future of evolved plastic artificial neural networks

Biological plastic neural networks are systems of extraordinary computational capabilities shaped by evolution, development, and lifetime learning. The interplay of these elements leads to the emergence of adaptive behavior and intelligence. Inspired by such intricate natural phenomena, Evolved Plastic Artificial Neural Networks (EPANNs) use simulated evolution in-silico to breed plastic neural networks with a large variety of dynamics, architectures, and plasticity rules: these artificial systems are composed of inputs, outputs, and plastic components that change in response to experiences in an environment. These systems may autonomously discover novel adaptive algorithms, and lead to hypotheses on the emergence of biological adaptation. EPANNs have seen considerable progress over the last two decades. Current scientific and technological advances in artificial neural networks are now setting the conditions for radically new approaches and results. In particular, the limitations of hand-designed networks could be overcome by more flexible and innovative solutions. This paper brings together a variety of inspiring ideas that define the field of EPANNs. The main methods and results are reviewed. Finally, new opportunities and developments are presented

Biology of Applied Digital Ecosystems

A primary motivation for our research in Digital Ecosystems is the desire to exploit the self-organising properties of biological ecosystems. Ecosystems are thought to be robust, scalable architectures that can automatically solve complex, dynamic problems. However, the biological processes that contribute to these properties have not been made explicit in Digital Ecosystems research. Here, we discuss how biological properties contribute to the self-organising features of biological ecosystems, including population dynamics, evolution, a complex dynamic environment, and spatial distributions for generating local interactions. The potential for exploiting these properties in artificial systems is then considered. We suggest that several key features of biological ecosystems have not been fully explored in existing digital ecosystems, and discuss how mimicking these features may assist in developing robust, scalable self-organising architectures. An example architecture, the Digital Ecosystem, is considered in detail. The Digital Ecosystem is then measured experimentally through simulations, with measures originating from theoretical ecology, to confirm its likeness to a biological ecosystem. Including the responsiveness to requests for applications from the user base, as a measure of the 'ecological succession' (development).Comment: 9 pages, 4 figure, conferenc

Metaheuristic models for decision support in the software construction process

En la actualidad, los ingenieros software no solo tienen la responsabilidad de construir sistemas que desempe~nen una determinada funcionalidad, sino que cada vez es más importante que dichos sistemas también cumplan con requisitos no funcionales como alta disponibilidad, efciencia o seguridad, entre otros. Para lograrlo, los ingenieros se enfrentan a un proceso continuo de decisión, pues deben estudiar las necesidades del sistema a desarrollar y las alternativas tecnológicas existentes para implementarlo. Todo este proceso debe estar encaminado a la obtención de sistemas software de gran calidad, reutilizables y que faciliten su mantenimiento y modificación en un escenario tan exigente y competitivo. La ingeniería del software, como método sistemático para la construcción de software, ha aportado una serie de pautas y tareas que, realizadas de forma disciplinada y adaptadas al contexto de desarrollo, posibilitan la obtención de software de calidad. En concreto, el proceso de análisis y diseño del software ha adquirido una gran importancia, pues en ella se concibe la estructura del sistema, en términos de sus bloques funcionales y las interacciones entre ellos. Es en este momento cuando se toman las decisiones acerca de la arquitectura, incluyendo los componentes que la conforman, que mejor se adapta a los requisitos, tanto funcionales como no funcionales, que presenta el sistema y que claramente repercuten en su posterior desarrollo. Por tanto, es necesario que el ingeniero analice rigurosamente las alternativas existentes, sus implicaciones en los criterios de calidad impuestos y la necesidad de establecer compromisos entre ellos. En este contexto, los ingenieros se guían principalmente por sus habilidades y experiencia, por lo que dotarles de métodos de apoyo a la decisión representaría un avance significativo en el área. La aplicación de técnicas de inteligencia artificial en este ámbito ha despertado un gran interés en los últimos años. En particular, la inteligencia artificial ha encontrado en la ingeniería del software un ámbito de aplicación complejo, donde diferentes técnicas pueden ayudar a conseguir la semi-automatización de tareas tradicionalmente realizadas de forma manual. De la unión de ambas áreas surge la denominada ingeniería del software basada en búsqueda, que propone la reformulación de las actividades propias de la ingeniería del software como problemas de optimización. A continuación, estos problemas podrían ser resueltos mediante técnicas de búsqueda como las metaheurísticas. Este tipo de técnicas se caracterizan por explorar el espacio de posibles soluciones de una manera \inteligente", a menudo simulando procesos naturales como es el caso de los algoritmos evolutivos. A pesar de ser un campo de investigación muy reciente, es posible encontrar propuestas para automatizar una gran variedad de tareas dentro del ciclo de vida del software, como son la priorización de requisitos, la planifcación de recursos, la refactorización del código fuente o la generación de casos de prueba. En el ámbito del análisis y diseño de software, cuyas tareas requieren de creatividad y experiencia, conseguir una automatización completa resulta poco realista. Es por ello por lo que la resolución de sus tareas mediante enfoques de búsqueda debe ser tratada desde la perspectiva del ingeniero, promoviendo incluso la interacción con ellos. Además, el alto grado de abstracción de algunas de sus tareas y la dificultad de evaluar cuantitativamente la calidad de un diseño software, suponen grandes retos en la aplicación de técnicas de búsqueda durante las fases tempranas del proceso de construcción de software. Esta tesis doctoral busca realizar aportaciones significativas al campo de la ingeniería del software basada en búsqueda y, más concretamente, al área de la optimización de arquitecturas software. Aunque se están realizando importantes avances en este área, la mayoría de propuestas se centran en la obtención de arquitecturas de bajo nivel o en la selección y despliegue de artefactos software ya desarrollados. Por tanto, no existen propuestas que aborden el modelado arquitectónico a un nivel de abstracción elevado, donde aún no existe un conocimiento profundo sobre cómo será el sistema y, por tanto, es más difícil asistir al ingeniero. Como problema de estudio, se ha abordado principalmente la tarea del descubrimiento de arquitecturas software basadas en componentes. El objetivo de este problema consiste en abstraer los bloques arquitectónicos que mejor definen la estructura actual del software, así como sus interacciones, con el fin de facilitar al ingeniero su posterior análisis y mejora. Durante el desarrollo de esta tesis doctoral se ha explorado el uso de una gran variedad de técnicas de búsqueda, estudiando su idoneidad y realizando las adaptaciones necesarias para hacer frente a los retos mencionados anteriormente. La primera propuesta se ha centrado en la formulación del descubrimiento de arquitecturas como problema de optimización, abordando la representación computacional de los artefactos software que deben ser modelados y definiendo medidas software para evaluar su calidad durante el proceso de búsqueda. Además, se ha desarrollado un primer modelo basado en algoritmos evolutivos mono-objetivo para su resolución, el cual ha sido validado experimentalmente con sistemas software reales. Dicho modelo se caracteriza por ser comprensible y exible, pues sus componentes han sido diseñados considerando estándares y herramientas del ámbito de la ingeniería del software, siendo además configurable en función de las necesidades del ingeniero. A continuación, el descubrimiento de arquitecturas ha sido tratado desde una perspectiva multiobjetivo, donde varias medidas software, a menudo en con icto, deben ser simultáneamente optimizadas. En este caso, la resolución del problema se ha llevado a cabo mediante ocho algoritmos del estado del arte, incluyendo propuestas recientes del ámbito de la optimización de muchos objetivos. Tras ser adaptados al problema, estos algoritmos han sido comparados mediante un extenso estudio experimental con el objetivo de analizar la ifnuencia que tiene el número y la elección de las métricas a la hora de guiar el proceso de búsqueda. Además de realizar una validación del rendimiento de estos algoritmos siguiendo las prácticas habituales del área, este estudio aporta un análisis detallado de las implicaciones que supone la optimización de múltiples objetivos en la obtención de modelos de soporte a la decisión. La última propuesta en el contexto del descubrimiento de arquitecturas software se centra en la incorporación de la opinión del ingeniero al proceso de búsqueda. Para ello se ha diseñado un mecanismo de interacción que permite al ingeniero indicar tanto las características deseables en las soluciones arquitectónicas (preferencias positivas) como aquellos aspectos que deben evitarse (preferencias negativas). Esta información es combinada con las medidas software utilizadas hasta el momento, permitiendo al algoritmo evolutivo adaptar la búsqueda conforme el ingeniero interactúe. Dadas las características del modelo, su validación se ha realizado con la participación de ingenieros con distinta experiencia en desarrollo software, a fin de demostrar la idoneidad y utilidad de la propuesta. En el transcurso de la tesis doctoral, los conocimientos adquiridos y las técnicas desarrolladas también han sido extrapolados a otros ámbitos de la ingeniería del software basada en búsqueda mediante colaboraciones con investigadores del área. Cabe destacar especialmente la formalización de una nueva disciplina transversal, denominada ingeniería del software basada en búsqueda interactiva, cuyo fin es promover la participación activa del ingeniero durante el proceso de búsqueda. Además, se ha explorado la aplicación de algoritmos de muchos objetivos a un problema clásico de la computación orientada a servicios, como es la composición de servicios web.Nowadays, software engineers have not only the responsibility of building systems that provide a particular functionality, but they also have to guarantee that these systems ful l demanding non-functional requirements like high availability, e ciency or security. To achieve this, software engineers face a continuous decision process, as they have to evaluate system needs and existing technological alternatives to implement it. All this process should be oriented towards obtaining high-quality and reusable systems, also making future modi cations and maintenance easier in such a competitive scenario. Software engineering, as a systematic method to build software, has provided a number of guidelines and tasks that, when done in a disciplinarily manner and properly adapted to the development context, allow the creation of high-quality software. More speci cally, software analysis and design has acquired great relevance, being the phase in which the software structure is conceived in terms of its functional blocks and their interactions. In this phase, engineers have to make decisions about the most suitable architecture, including its constituent components. Such decisions are made according to the system requirements, either functional or non-functional, and will have a great impact on its future development. Therefore, the engineer has to rigorously analyse existing alternatives, their implications on the imposed quality criteria and the need of establishing trade-o s among them. In this context, engineers are mostly guided by their own capabilities and experience, so providing them with decision support methods would represent a signi cant contribution. The application of arti cial intelligent techniques in this area has experienced a growing interest in the last years. Particularly, software engineering represents a complex application domain to arti cial intelligence, whose diverse techniques can help in the semi-automation of tasks traditionally performed manually. The union of both elds has led to the appearance of search-based software engineering, which proposes reformulating software engineering activities as optimisation problems. For their resolution, search techniques like metaheuristics can be then applied. This type of technique performs an \intelligent" exploration of the space of candidate solutions, often inspired by natural processes as happens with evolutionary algorithms. Despite the novelty of this research eld, there are proposals to automate a great variety of tasks within the software lifecycle, such as requirement prioritisation, resource planning, code refactoring or test case generation. Focusing on analysis and design, whose tasks require creativity and experience, trying to achieve full automation is not realistic. Therefore, solving design tasks by means of search approaches should be oriented towards the engineer's perspective, even promoting their interaction. Furthermore, design tasks are also characterised by a high level of abstraction and the di culty of quantitatively evaluating design quality. All these aspects represent key challenges for the application of search techniques in early phases of the software construction process. The aim of this Ph.D. Thesis is to make signi cant contributions in search-based software engineering and, specially, in the area of software architecture optimisation. Although it is an area in which signi cant progress is being done, most of the current proposals are focused on generating low-level architectures or selecting and deploying already developed artefacts. Therefore, there is a lack of proposals dealing with architectural modelling at a high level of abstraction. At this level, engineers do not have a deep understanding of the system yet, meaning that assisting them is even more di cult. As case study, the discovery of component-based software architectures has been primary addressed. The objective for this problem consists in the abstraction of the architectural blocks, and their interactions, that best de ne the current structure of a software system. This can be viewed as the rst step an engineer would perform in order to further analyse and improve the system architecture. In this Ph.D. Thesis, the use of a great variety of search techniques has been explored. The suitability of these techniques has been studied, also making the necessary adaptations to cope with the aforementioned challenges. A rst proposal has been focused on the formulation of software architecture discovery as an optimisation problem, which consists in the computational representation of its software artefacts and the de nition of software metrics to evaluate their quality during the search process. Moreover, a single-objective evolutionary algorithm has been designed for its resolution, which has been validated using real software systems. The resulting model is comprehensible and exible, since its components have been designed under software engineering standards and tools and are also con gurable according to engineer's needs. Next, the discovery of software architectures has been tackled from a multi-objective perspective, in which several software metrics, often in con ict, have to be simultaneously optimised. In this case, the problem is solved by applying eight state-of-theart algorithms, including some recent many-objective approaches. These algorithms have been adapted to the problem and compared in an extensive experimental study, whose purpose is to analyse the in uence of the number and combination of metrics when guiding the search process. Apart from the performance validation following usual practices within the eld, this study provides a detailed analysis of the practical implications behind the optimisation of multiple objectives in the context of decision support. The last proposal is focused on interactively including the engineer's opinion in the search-based architecture discovery process. To do this, an interaction mechanism has been designed, which allows the engineer to express desired characteristics for the solutions (positive preferences), as well as those aspects that should be avoided (negative preferences). The gathered information is combined with the software metrics used until the moment, thus making possible to adapt the search as the engineer interacts. Due to the characteristics of the proposed model, engineers of di erent expertise in software development have participated in its validation with the aim of showing the suitability and utility of the approach. The knowledge acquired along the development of the Thesis, as well as the proposed approaches, have also been transferred to other search-based software engineering areas as a result of research collaborations. In this sense, it is worth noting the formalisation of interactive search-based software engineering as a cross-cutting discipline, which aims at promoting the active participation of the engineer during the search process. Furthermore, the use of many-objective algorithms has been explored in the context of service-oriented computing to address the so-called web service composition problem

Complexity, BioComplexity, the Connectionist Conjecture and Ontology of Complexity\ud

This paper develops and integrates major ideas and concepts on complexity and biocomplexity - the connectionist conjecture, universal ontology of complexity, irreducible complexity of totality & inherent randomness, perpetual evolution of information, emergence of criticality and equivalence of symmetry & complexity. This paper introduces the Connectionist Conjecture which states that the one and only representation of Totality is the connectionist one i.e. in terms of nodes and edges. This paper also introduces an idea of Universal Ontology of Complexity and develops concepts in that direction. The paper also develops ideas and concepts on the perpetual evolution of information, irreducibility and computability of totality, all in the context of the Connectionist Conjecture. The paper indicates that the control and communication are the prime functionals that are responsible for the symmetry and complexity of complex phenomenon. The paper takes the stand that the phenomenon of life (including its evolution) is probably the nearest to what we can describe with the term “complexity”. The paper also assumes that signaling and communication within the living world and of the living world with the environment creates the connectionist structure of the biocomplexity. With life and its evolution as the substrate, the paper develops ideas towards the ontology of complexity. The paper introduces new complexity theoretic interpretations of fundamental biomolecular parameters. The paper also develops ideas on the methodology to determine the complexity of “true” complex phenomena.\u

Machine Learning for Fluid Mechanics

The field of fluid mechanics is rapidly advancing, driven by unprecedented volumes of data from field measurements, experiments and large-scale simulations at multiple spatiotemporal scales. Machine learning offers a wealth of techniques to extract information from data that could be translated into knowledge about the underlying fluid mechanics. Moreover, machine learning algorithms can augment domain knowledge and automate tasks related to flow control and optimization. This article presents an overview of past history, current developments, and emerging opportunities of machine learning for fluid mechanics. It outlines fundamental machine learning methodologies and discusses their uses for understanding, modeling, optimizing, and controlling fluid flows. The strengths and limitations of these methods are addressed from the perspective of scientific inquiry that considers data as an inherent part of modeling, experimentation, and simulation. Machine learning provides a powerful information processing framework that can enrich, and possibly even transform, current lines of fluid mechanics research and industrial applications.Comment: To appear in the Annual Reviews of Fluid Mechanics, 202