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

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

A practical comparison of agile web frameworks

[ES] Los web frameworks son herramientas para mejorar el desarrollo y mantenimiento de sitios web. Aprender a utilizar un framework requiere varios meses y existen más de 100 web frameworks. Por ello es interesante que haya estudios que muestren sus diferencias. En este proyecto se realizó una comparativa de web frameworks para valorar sus diferencias, debilidades y fortalezas. Para seleccionar los web frameworks se utilizaron variables como las estadísticas de uso, popularidad y resultados en otras omparativas. Además, se decidió que los web frameworks seleccionados estuviesen basados en distintos lenguajes de programación. En base a esto se seleccionaron los web frameworks : Rails, Grails, Django y Codelgniter. Para compararlos se implementó una aplicación muy sencilla, MyBlog, con cada uno de ellos, un sistema de usuarios con blogs, posts y comentarios. La preparación para esta implementación consistió en : leer documentación sobre el lenguaje de programación, realizar un conjunto de ejercicios muy sencillos y leer la documentación del web framework. Todas estas tareas, incluida la implementación de MyBlog se tuvieron que realizar en un tiempo límite asignado. En base a este desarrollo se concluyó que Rails, Grails y Django son frameworks que requieren mucho tiempo en su aprendizaje, mientras que Codelgniter es mucho más sencillo de aprender. Sin embargo, los primeros producen un código más conciso y menos repetitivo, mientras que el último resulta en un código repetitivo y extenso. Por otro lado, la documentación de Grails era de baja calidad e incrementaba la dificultad en su aprendizaje. Rails y Django presentan una buena documentación. Rails es el único framework con un gran soporte para migraciones y Javascript. Django es el único que soporta las class-based views. Grails es el único que soporta internacionalización desde la generación de código.

Progettazione di un sistema per patient-reported outcome utilizzabile anche su dispositivi mobili

In questo elaborato prenderemo in esame la questione della progettazione di un sistema software atto a gestire alcuni dei problemi legati alla raccolta dei dati in ambito medico. Da tempo infatti si è capita l'importanza di una speciale tecnica di raccolta dei dati clinici, nota in letteratura col nome di "patient-reported outcome", che prevede che siano i pazienti stessi a fornire le informazioni circa l'andamento di una cura, di un test clinico o, più semplicemente, informazioni sul loro stato di salute fisica o mentale. Vedremo in questa trattazione come ciò sia possibile e, soprattutto, come le tecniche e le tecnologie informatiche possano dare un grande contributo ai problemi di questo ambito. Mostreremo non solo come sia conveniente l'uso, in campo clinico, di tecniche automatiche di raccolta dei dati, della loro manipolazione, aggregazione e condivisione, ma anche come sia possibile realizzare un sistema moderno che risolva tutti questi problemi attraverso l'utilizzo di tecnologie esistenti, tecniche di modellazione dei dati strutturati e un approccio che, mediante un processo di generalizzazione, aiuti a semplificare lo sviluppo del software stesso.

Dyanote: Hypertext-based note-taking

Dyanote é un programma di note taking dove gli appunti sono gestiti in un ipertesto. E' stato sviluppando usando Django ed AngularJS.

An integrated system for building and running reproducible research

Our generation of computational scientists is living in an exciting time: not only do we get to pioneer important algorithms and computations, we also get to set standards on how computational research should be conducted and published. From Euclid’s reasoning and Galileo’s experiments, it took hundreds of years for the theoretical and experimental branches of science to develop standards for publication and peer review. Computational science, rightly regarded as the third branch, can walk the same road much faster. The success and credibility of science are anchored in the willingness of scientists to expose their ideas and results to independent testing and replication by other scientists. This requires the complete and open exchange of data, procedures and materials. The idea of a “replication by other scientists” in reference to computations is more commonly known as “reproducible research”. In this context the journal “EAI Endorsed Transactions on Performance & Modeling, Simulation, Experimentation and Complex Systems” had the exciting and original idea to make the scientist able to submit simultaneously the article and the computation materials (software, data, etc..) which has been used to produce the contents of the article. The goal of this procedure is to allow the scientific community to verify the content of the paper, reproducing it in the platform independently from the OS chosen, confirm or invalidate it and especially allow its reuse to reproduce new results. This procedure is therefore not helpful if there is no minimum methodological support. In fact, the raw data sets and the software are difficult to exploit without the logic that guided their use or their production. This led us to think that in addition to the data sets and the software, an additional element must be provided: the workflow that relies all of them.

Analisi dei principali web framework basati su python

Lo scopo di questa tesi è dimostrare quale sia il miglior Web Framework con linguaggio Python fra i tre principali esponenti: Django, web2py e TurboGears. Inizialmente verrà effettuata un’analisi generale sui Web Framework, in particolare quelli con architettura MVC poiché sarà l’architettura utilizzata da Django, web2py e TurboGears. Successivamente, per ogni Web Framework verrà analizzata la struttura generale e i componenti core degli stessi. Tuttavia per stabilire chi sia il migliore fra di essi bisogna anche analizzare come essi gestiscono altri ambiti dello sviluppo web e quindi vengono analizzati tutti i tools messi a disposizione dai Web Framework. Alla fine verranno tratte le conclusioni in cui verrà chiarito quale sia il Web Framework migliore per uno sviluppatore e perché, andando a riassumere le caratteristiche di tutti e tre.

Análisis de datos de periódicos digitales

En este proyecto se ha desarrollado una aplicación Web cuya finalidad es ofrecer al usuario datos provenientes del análisis de texto de las noticias que se encuentran en periódicos online. La aplicación permite al usuario realizar búsquedas personalizadas sobre temáticas específicas y configurar algunos tipos de análisis sobre la información recuperada. Entre los análisis que son llevados a cabo destaca el análisis del sentimiento. Para ello se ofrece la posibilidad de que el usuario utilice sus propios diccionarios de pares palabra-valor, utilizados para realizar este tipo de análisis. Para la codificación de la herramienta, se ha utilizado el lenguaje de programación Python y la framework web Django. El almacenamiento de la información de la aplicación se ha realizado sobre una base de datos NoSQL de tipo MongoDB.

Two case studies on generating administrative process applications with AdminDSL

Some organizations end up reimplementing the same class of business process over and over: an "administrative process", which consists of managing a form through several states and involving various roles in the organization. This results in wasted time that could be dedicated to better understanding the process or dealing with the fine details that are specific to the process. Existing virtual office solutions require specific training and infrastructure andmay result in vendor lock-in. In this paper, we propose using a high-level domain-specific language (AdminDSL) to describe the administrative process and a separate code generator targeting a standard web framework. We have implemented the approach using Xtext, EGL and the Django web framework, and we illustrate it through two case studies: a synthetic examination process which illustrates the architecture of the generated code, and a real-world workplace survey process that identified several future avenues for improvement.