Adopting the Vaadin Java framework to rebuild VTT’s Web Interfaces and Database Applications

With the growth in new technologies, using online tools have become an everyday lifestyle. It has a greater impact on researchers as the data obtained from various experiments needs to be analyzed and knowledge of programming has become mandatory even for pure biologists. Hence, VTT came up with a new tool, R Executables (REX) which is a web application designed to provide a graphical interface for biological data functions like Image analysis, Gene expression data analysis, plotting, disease and control studies etc., which employs R functions to provide results. REX provides a user interactive application for the biologists to directly enter the values and run the required analysis with a single click. The program processes the given data in the background and prints results rapidly. Due to growth of data and load on server, the interface has gained problems concerning time consumption, poor GUI, data storage issues, security, minimal user interactive experience and crashes with large amount of data. This thesis handles the methods by which these problems were resolved and made REX a better application for the future. The old REX was developed using Python Django and now, a new programming language, Vaadin has been implemented. Vaadin is a Java framework for developing web applications and the programming language is extremely similar to Java with new rich components. Vaadin provides better security, better speed, good and interactive interface. In this thesis, subset functionalities of REX was selected which includes IST bulk plotting and image segmentation and implemented those using Vaadin. A code of 662 lines was programmed by me which included Vaadin as the front-end handler while R language was used for back-end data retrieval, computing and plotting. The application is optimized to allow further functionalities to be migrated with ease from old REX. Future development is focused on including Hight throughput screening functions along with gene expression database handling

Visualization of thermal-hydraulic nodes

The purpose of this thesis was to develop a program that can illustrate thermal-hydraulic node dimensions used in SMABRE simulations. These created node illustrations are used to verify the correctness of the designed simulation model and in addition they can be included in scientific reports. This thesis will include theory about SMABRE and relevant programs that were used to achieve the ending results. This thesis will give explanations for different modules that were created and used in the finished program, and it will present the different problems encountered and provide the solutions. The most important objective in this thesis is to display the results of generic VVER-1000 node dimensions and verify the correctness in the displayed part. The finished program was created using code language Python.

Verkkosivuston käytön mittaaminen

Tässä työssä käsitellään kävijäseurannan menetelmiä ja toteutetaan niitä käytännössä. Web-analytiikkaohjelmistojen toimintaan tutustutaan, pääasiassa keskittyen Google Analyticsiin. Tavoitteena on selvittää Lappeenrannan matkailulaitepäätteiden käyttömääriä ja eriyttää niitä laitekohtaisesti. Web-analytiikasta tehdään kirjallisuuskatsaus ja kävijäseurantadataa analysoidaan sekä vertaillaan kahdesta eri verkkosivustosta. Lisäksi matkailulaitepäätteiden verkkosivuston lokeja tarkastellaan tiedonlouhinnan keinoin tarkoitusta varten kehitetyllä Python-sovelluksella. Työn pohjalta voidaan todeta, ettei matkailulaitepäätteiden käyttömääriä voida nykyisen toteutuksen perusteella eriyttää laitekohtaisesti. Istuntojen määrää ja tapahtumia voidaan kuitenkin seurata. Matkailulaitepäätteiden kävijäseurannassa tunnistetaan useita ongelmia, kuten päätteiden automaattisen verkkosivunpäivityksen tuloksia vääristävä vaikutus, osittainen Google Analytics -integraatio ja tärkeimpänä päätteen yksilöivän tunnistetiedon puuttuminen. Työssä ehdotetaan ratkaisuja, joilla mahdollistetaan kävijäseurannan tehokas käyttö ja laitekohtainen seuranta. Saadut tulokset korostavat kävijäseurannan toteutuksen suunnitelmallisuuden tärkeyttä.

QUANTIFICATION AND EXTRACTION OF SURFACE FEATURES FROM DIGITAL TERRAIN MODELS

Digital Terrain Models (DTMs) are important in geology and geomorphology, since elevation data contains a lot of information pertaining to geomorphological processes that influence the topography. The first derivative of topography is attitude; the second is curvature. GIS tools were developed for derivation of strike, dip, curvature and curvature orientation from Digital Elevation Models (DEMs). A method for displaying both strike and dip simultaneously as colour-coded visualization (AVA) was implemented. A plug-in for calculating strike and dip via Least Squares Regression was created first using VB.NET. Further research produced a more computationally efficient solution, convolution filtering, which was implemented as Python scripts. These scripts were also used for calculation of curvature and curvature orientation. The application of these tools was demonstrated by performing morphometric studies on datasets from Earth and Mars. The tools show promise, however more work is needed to explore their full potential and possible uses.

Génération et reconnaissance de rythmes au moyen de réseaux de neurones à réservoir

Les fichiers sons qui accompagne mon document sont au format midi. Le programme que nous avons développés pour ce travail est en language Python.

Calcul en n-dimensions sur GPU

Le code source de la libraire développée accompagne ce dépôt dans l'état où il était à ce moment. Il est possible de trouver une version plus à jour sur github (http://github.com/abergeron).

Design, Development and Realization of Quadratic Volterra Filters for Selected Applications

The basic concepts of digital signal processing are taught to the students in engineering and science. The focus of the course is on linear, time invariant systems. The question as to what happens when the system is governed by a quadratic or cubic equation remains unanswered in the vast majority of literature on signal processing. Light has been shed on this problem when John V Mathews and Giovanni L Sicuranza published the book Polynomial Signal Processing. This book opened up an unseen vista of polynomial systems for signal and image processing. The book presented the theory and implementations of both adaptive and non-adaptive FIR and IIR quadratic systems which offer improved performance than conventional linear systems. The theory of quadratic systems presents a pristine and virgin area of research that offers computationally intensive work. Once the area of research is selected, the next issue is the choice of the software tool to carry out the work. Conventional languages like C and C++ are easily eliminated as they are not interpreted and lack good quality plotting libraries. MATLAB is proved to be very slow and so do SCILAB and Octave. The search for a language for scientific computing that was as fast as C, but with a good quality plotting library, ended up in Python, a distant relative of LISP. It proved to be ideal for scientific computing. An account of the use of Python, its scientific computing package scipy and the plotting library pylab is given in the appendix Initially, work is focused on designing predictors that exploit the polynomial nonlinearities inherent in speech generation mechanisms. Soon, the work got diverted into medical image processing which offered more potential to exploit by the use of quadratic methods. The major focus in this area is on quadratic edge detection methods for retinal images and fingerprints as well as de-noising raw MRI signals

Design, implementation and application of a generic framework for integrated regional land-use modeling

Land use is a crucial link between human activities and the natural environment and one of the main driving forces of global environmental change. Large parts of the terrestrial land surface are used for agriculture, forestry, settlements and infrastructure. Given the importance of land use, it is essential to understand the multitude of influential factors and resulting land use patterns. An essential methodology to study and quantify such interactions is provided by the adoption of land-use models. By the application of land-use models, it is possible to analyze the complex structure of linkages and feedbacks and to also determine the relevance of driving forces. Modeling land use and land use changes has a long-term tradition. In particular on the regional scale, a variety of models for different regions and research questions has been created. Modeling capabilities grow with steady advances in computer technology, which on the one hand are driven by increasing computing power on the other hand by new methods in software development, e.g. object- and component-oriented architectures. In this thesis, SITE (Simulation of Terrestrial Environments), a novel framework for integrated regional sland-use modeling, will be introduced and discussed. Particular features of SITE are the notably extended capability to integrate models and the strict separation of application and implementation. These features enable efficient development, test and usage of integrated land-use models. On its system side, SITE provides generic data structures (grid, grid cells, attributes etc.) and takes over the responsibility for their administration. By means of a scripting language (Python) that has been extended by language features specific for land-use modeling, these data structures can be utilized and manipulated by modeling applications. The scripting language interpreter is embedded in SITE. The integration of sub models can be achieved via the scripting language or by usage of a generic interface provided by SITE. Furthermore, functionalities important for land-use modeling like model calibration, model tests and analysis support of simulation results have been integrated into the generic framework. During the implementation of SITE, specific emphasis was laid on expandability, maintainability and usability. Along with the modeling framework a land use model for the analysis of the stability of tropical rainforest margins was developed in the context of the collaborative research project STORMA (SFB 552). In a research area in Central Sulawesi, Indonesia, socio-environmental impacts of land-use changes were examined. SITE was used to simulate land-use dynamics in the historical period of 1981 to 2002. Analogous to that, a scenario that did not consider migration in the population dynamics, was analyzed. For the calculation of crop yields and trace gas emissions, the DAYCENT agro-ecosystem model was integrated. In this case study, it could be shown that land-use changes in the Indonesian research area could mainly be characterized by the expansion of agricultural areas at the expense of natural forest. For this reason, the situation had to be interpreted as unsustainable even though increased agricultural use implied economic improvements and higher farmers' incomes. Due to the importance of model calibration, it was explicitly addressed in the SITE architecture through the introduction of a specific component. The calibration functionality can be used by all SITE applications and enables largely automated model calibration. Calibration in SITE is understood as a process that finds an optimal or at least adequate solution for a set of arbitrarily selectable model parameters with respect to an objective function. In SITE, an objective function typically is a map comparison algorithm capable of comparing a simulation result to a reference map. Several map optimization and map comparison methodologies are available and can be combined. The STORMA land-use model was calibrated using a genetic algorithm for optimization and the figure of merit map comparison measure as objective function. The time period for the calibration ranged from 1981 to 2002. For this period, respective reference land-use maps were compiled. It could be shown, that an efficient automated model calibration with SITE is possible. Nevertheless, the selection of the calibration parameters required detailed knowledge about the underlying land-use model and cannot be automated. In another case study decreases in crop yields and resulting losses in income from coffee cultivation were analyzed and quantified under the assumption of four different deforestation scenarios. For this task, an empirical model, describing the dependence of bee pollination and resulting coffee fruit set from the distance to the closest natural forest, was integrated. Land-use simulations showed, that depending on the magnitude and location of ongoing forest conversion, pollination services are expected to decline continuously. This results in a reduction of coffee yields of up to 18% and a loss of net revenues per hectare of up to 14%. However, the study also showed that ecological and economic values can be preserved if patches of natural vegetation are conservated in the agricultural landscape. -----------------------------------------------------------------------

wxGRASS: una interfaz gráfica de usuario para la integración de diversos programas libres para SIG

This paper presents a Graphical User Interface, developed with python and the graphic library wxpython, to GRASS GIS. This GUI allows to access several modules with a graphic interface written in Spanish. Its main purpouse is to be a teaching tool, that is the reason way it only allows to access several basic put crucial moludes. It also allows user to organize the elements presented to stress the aspects to be resalted in a particular working sesion with the program

LOCALITZA: una herramienta SIG para resolver problemas de localización óptima

LOCALITZA software is a tool that increases GIS applications possibilities to analyze and solve optimal facility location problems. This system, that it is being migrated from Delphi to Python, allows to evaluate how existing facility supply covers the demand. ON the other hand, it includes the resolution of an elevated number of classic location-allocation models and, in some cases, includes new models

Teoría de modelado del e-learning y aplicación a un sistema de pistas adaptativo en tutoría inteligente utilizando técnicas de web semántica.

Se trata de habilitar las mejores prácticas de enseñanza a través de las tecnologías de la información para posibilitar un aprendizaje más efectivo para los alumnos, así como proporcionar un sencillo y flexible acceso a todas las potencialidades para los profesores, al mismo tiempo que se maximiza la eficiencia y adecuación de su implementación usando las tecnologías de la información. Se define una teoría de modelado del e-learning, que por un lado aporte una visión global de modelado del e-learning; y por otro, modele de forma completa desde diferentes puntos de vista aspectos para los que se detectan carencias Otro objetivo es crear un nuevo sistema de pistas adaptativo en tutoría inteligente utilizando técnicas de Web semántica, donde se apliquen varios de los diferentes aspectos de la teoría. En esta tesis se proporciona una teoría de modelado del e-learning, que incluye una visión global sobre qué modelar y cómo hacerlo, las interrelaciones entre diferentes conceptos y elementos, una visión ideal sobre el e-learning, una propuesta de proceso de desarrollo en ciclo de vida, y un plan general de evaluación de los diferentes aspectos involucrados. Además, como parte de esta teoría, se han analizado las relaciones entre las funcionalidades de sistemas de gestión del aprendizaje y los estándares de e-learning actuales, se ha definido un nuevo modelo que extiende UML y otro basado en la especificación IMS-CP (Content Packaging) para el modelado de cursos completos en sistemas de gestión del aprendizaje, se ha contribuido en varias herramientas de autor que pueden verse como modelados en lenguaje natural de diferentes aspectos del e-learning de forma que sean sencillos de utilizar por profesores sin grandes conocimientos tecnológicos, y se ha creado una nueva teoría de reglas de adaptación personalizadas que son atómicas, reusables, intercambiables, e interoperables. Se ha definido una nueva especificación de pistas para el aprendizaje basado en problemas, que recopila funcionalidades de otros sistemas del estado del arte, pero también incluye nuevas funcionalidades basadas en ideas propias, dando una justificación pedagógica de cada aspecto. Se ha establecido un mapeo a XML, y otra representación a UML. Así mismo, se ha diseñado una herramienta de autor que permite a profesores sin grandes conocimientos tecnológicos crear los ejercicios con pistas de acuerdo con la especificación. Para poner en práctica este modelo de pistas, se ha implementado un módulo reproductor de pistas programado en python como una extesión al tutor inteligente XTutor. Este reproductor permite desplegar ejercicios con pistas que cubren los casos de la nueva especificación definida y que quedan disponibles vía Web para su uso por parte de los alumnos. También se ha diseñado una herramienta de competición innovadora para aprovechar la motivación junto con el aprendizaje basado en problemas.

Cómo descubrir las mates y no morir en el intento! : guía de enseñanza-aprendizaje con software libre y gratuito.

Resumen basado en el de la publicación

Servidor de Cartografía Coloma

En 2009 la Unidad Municipal de Análisis Territorial del Ajuntament de Girona apostó por integrar al sistema de información territorial existente un conjunto de herramientas libres para publicar cartografía. Un año después, más de la mitad de los servicios de cartografía web están funcionando sobre este nuevo sistema. El nuevo sistema, llamado Coloma, se basa en una base de datos PostGIS, la librería de render Mapnik, el servidor WS Ogcserver, la librería Javascript OpenLayers, el framework Django, el lenguaje de programación Python y el servidor web Apache con el módulo para WSGI. Coloma incluye una herramienta de administración web para facilitar la configuración y la administración del día a día. Aporta pequeñas mejoras a los proyectos por separado y un valor añadido al conjunto, consiguiendo un servidor de cartografía formado por proyectos de éxito, robusto y con muchas posibilidades. Coloma ha demostrado ser fiable y sus componentes siguen mejorando día a día. El hecho de ser software libre nos ha permitido acceder al conocimiento, código y documentación que hay sobre todo este software en Internet. En los próximos meses la UMAT va a liberar el proyecto Coloma para que más gente pueda beneficiarse del trabajo hecho hasta ahora

Integración de SEXTANTE en GearSCape

SEXTANTE es un marco para el desarrollo de algoritmos dedicados al procesamiento de información geográficamente referenciada, que actualmente cuenta con más de doscientos algoritmos que son capaces de operar sobre datos vectoriales, alfanuméricos y raster. Por otra parte, GearScape es un sistema de información geográfico orientado al geoprocesamiento, que dispone de un lenguaje declarativo que permite el desarrollo de geoprocesos sin necesidad de herramientas de desarrollo complejas. Dicho lenguaje está basado en el estándar SQL y extendido mediante la norma OGC para el acceso a fenómenos simples. Al ser un lenguaje mucho más simple que los lenguajes de programación imperativos (java, .net, python, etc.) la creación de geoprocesos es también más simple, más fácil de documentar, menos propensa a bugs y además la ejecución es optimizada de manera automática mediante el uso de índices y otras técnicas. La posibilidad de describir cadenas de operaciones complejas tiene también valor a modo de documentación: es posible escribir todos los pasos para la resolución de un determinado problema y poder recuperarlo tiempo después, reutilizarlo fácilmente, comunicárselo a otra persona, etc. En definitiva, el lenguaje de geoprocesamiento de GearScape permite "hablar" de geoprocesos. La integración de SEXTANTE en GearScape tiene un doble objetivo. Por una parte se pretende proporcionar la posibilidad de usar cualquiera de los algoritmos con la interfaz habitual de SEXTANTE. Por la otra, se pretende añadir al lenguaje de geoprocesamiento de GearScape la posibilidad de utilizar algoritmos de SEXTANTE. De esta manera, cualquier problema que se resuelva mediante la utilización de varios de estos algoritmes puede ser descrito con el lenguaje de geoprocesamiento de GearScape. A las ventajas del lenguaje de GearScape para la definición de geoprocesos, se añade el abanico de geoprocesos disponible en SEXTANTE, por lo que el lenguaje de geoprocesamiento de GearScape nos permite "hablar" utilizando vocabulario de SEXTANTE