A Quick Guide for Developing Effective Bioinformatics Programming Skills

Bioinformatics programming skills are becoming a necessity across many facets of biology and medicine, owed in part to the continuing explosion of biological dat

Engineering Enterprise Software Systems with Interactive UML Models and Aspect-Oriented Middleware

Large scale enterprise software systems are inherently complex and hard to maintain. To deal with this complexity, current mainstream software engineering practices aim at raising the level of abstraction to visual models described in OMG’s UML modeling language. Current UML tools, however, produce static design diagrams for documentation which quickly become out-of-sync with the software, and thus obsolete. To address this issue, current model-driven software development approaches aim at software automation using generators that translate models into code. However, these solutions don’t have a good answer for dealing with legacy source code and the evolution of existing enterprise software systems. This research investigates an alternative solution by making the process of modeling more interactive with a simulator and integrating simulation with the live software system. Such an approach supports model-driven development at a higher-level of abstraction with models without sacrificing the need to drop into a lower-level with code. Additionally, simulation also supports better evolution since the impact of a change to a particular area of existing software can be better understood using simulated “what-if” scenarios. This project proposes such a solution by developing a web-based UML simulator for modeling use cases and sequence diagrams and integrating the simulator with existing applications using aspect-oriented middleware technology

Reference Architecture for e-Learning Solutions

In deze scriptie worden de volgende drie modellen en raamwerken voor e-Learning besproken: het e-Learning raamwerk ontwikkeld voor de UKeU, het model voor Web-based Instructional Systems ontwikkeld door Retalis en Avgeriou en het LTSA ontwikkeld door het IEEE. Deze drie modellen vormen de theoretische basis voor een Managed Learning Environment die als domeinmodel dienen voor e-Learning oplossingen

Technology Selection for Big Data and Analytical Applications

The term Big Data has become pervasive in recent years, as smart phones, televisions, washing machines, refrigerators, smart meters, diverse sensors, eyeglasses, and even clothes connect to the Internet. However, their generated data is essentially worthless without appropriate data analytics that utilizes information retrieval, statistics, as well as various other techniques. As Big Data is commonly too big for a single person or institution to investigate, appropriate tools are being used that go way beyond a traditional data warehouse and that have been developed in recent years. Unfortunately, there is no single solution but a large variety of different tools, each of which with distinct functionalities, properties and characteristics. Especially small and medium-sized companies have a hard time to keep track, as this requires time, skills, money, and specific knowledge that, in combination, result in high entrance barriers for Big Data utilization. This paper aims to reduce these barriers by explaining and structuring different classes of technologies and the basic criteria for proper technology selection. It proposes a framework that guides especially small and mid-sized companies through a suitable selection process that can serve as a basis for further advances

Late-bound code generation

Each time a function or method is invoked during the execution of a program, a stream of instructions is issued to some underlying hardware platform. But exactly what underlying hardware, and which instructions, is usually left implicit. However in certain situations it becomes important to control these decisions. For example, particular problems can only be solved in real-time when scheduled on specialised accelerators, such as graphics coprocessors or computing clusters. We introduce a novel operator for hygienically reifying the behaviour of a runtime function instance as a syntactic fragment, in a language which may in general differ from the source function definition. Translation and optimisation are performed by recursively invoked, dynamically dispatched code generators. Side-effecting operations are permitted, and their ordering is preserved. We compare our operator with other techniques for pragmatic control, observing that: the use of our operator supports lifting arbitrary mutable objects, and neither requires rewriting sections of the source program in a multi-level language, nor interferes with the interface to individual software components. Due to its lack of interference at the abstraction level at which software is composed, we believe that our approach poses a significantly lower barrier to practical adoption than current methods. The practical efficacy of our operator is demonstrated by using it to offload the user interface rendering of a smartphone application to an FPGA coprocessor, including both statically and procedurally defined user interface components. The generated pipeline is an application-specific, statically scheduled processor-per-primitive rendering pipeline, suitable for place-and-route style optimisation. To demonstrate the compatibility of our operator with existing languages, we show how it may be defined within the Python programming language. We introduce a transformation for weakening mutable to immutable named bindings, termed let-weakening, to solve the problem of propagating information pertaining to named variables between modular code generating units.Open Acces

A formal framework for model management

El Desarrollo de Software Dirigido por Modelos es una rama de la Ingeniería del Software en la que los artefactos software se representan como modelos para incrementar la productividad, calidady eficiencia económica en el proceso de desarrollo de software, donde un modelo proporciona una representación abstracta del código final de una aplicación. En este campo, la iniciativa Model-Driven Architecture (MDA), patrocinada por la OMG, está constituida por una familia de estándares industriales, entre los que se destacan: Meta-Object Facility (MOF), Unified Modeling Language (UML), Object Constraint Language (OCL), XML Metadata Interchange (XMI), y Query/Views/Transformations (QVT). Estos estándares proporcionan unas directrices comunes para herramientas basadas en modelos y para procesos de desarrollo de software dirigidos por modelos. Su objetivo consiste en mejorar la interoperabilidad entre marcos de trabajo ejecutables, en automatizar el proceso desarrollo de software de software y en proporcionar técnicas que eviten errores durante ese proceso. El estándar MOF describe un marco de trabajo genérico que permite definir la sintaxis abstracta de lenguajes de modelado. Este estándar persigue la definición de los conceptos básicos que son utilizados en procesos de desarrollo de software dirigidos por modelos: que es un modelo, que es un metamodelo, qué es reflexión en un marco de trabajo basado en MOF, etc. Sin embargo, la mayoría de estos conceptos carecen de una semántica formal en la versión actual del estándar MOF. Además, OCL se utiliza como un lenguage de definición de restricciones que permite añadir semántica a un metamodelo MOF. Desafortunadamente, la relación entre un metamodelo y sus restricciones OCL también carece de una semántica formal. Este hecho es debido, en parte, a que los metamodelos solo pueden ser definidos como dato en un marco de trabajo basado en MOF. El estándar MOF también proporciona las llamadas facilidades de reflexión de MOF (MOF ReflectiBoronat Moll, A. (2007). A formal framework for model management [Tesis doctoral no publicada]. Universitat Politècnica de València. https://doi.org/10.4995/Thesis/10251/1964Palanci