Using open source tools to support collaboration within CALIBRE

Abstract – This paper describes the deployment of Plone, an Open-Source content management system, to support the activities of CALIBRE, an EU-funded coordination action integrating research into Libre software. The criteria by which Plone was selected are described, and the goodness of fit to these criteria is analysed. As a coordination action, CALIBRE involves 12 partners with different requirements and characteristics. The CALIBRE Working Environment (CWE) must therefore support a variety of users with different levels of technical expertise and expectations. Implementation of the support infrastructure for CALIBRE is ongoing, and has provided some interesting insights into the benefits of the use of libre software. Although Plone has not been explicitly developed as a collaboration infrastructure, with its wealth of plugins, it has proven highly adaptable for this purpose

Assessing architectural evolution: A case study

This is the post-print version of the Article. The official published can be accessed from the link below - Copyright @ 2011 SpringerThis paper proposes to use a historical perspective on generic laws, principles, and guidelines, like Lehman’s software evolution laws and Martin’s design principles, in order to achieve a multi-faceted process and structural assessment of a system’s architectural evolution. We present a simple structural model with associated historical metrics and visualizations that could form part of an architect’s dashboard. We perform such an assessment for the Eclipse SDK, as a case study of a large, complex, and long-lived system for which sustained effective architectural evolution is paramount. The twofold aim of checking generic principles on a well-know system is, on the one hand, to see whether there are certain lessons that could be learned for best practice of architectural evolution, and on the other hand to get more insights about the applicability of such principles. We find that while the Eclipse SDK does follow several of the laws and principles, there are some deviations, and we discuss areas of architectural improvement and limitations of the assessment approach

ImageJ2: ImageJ for the next generation of scientific image data

ImageJ is an image analysis program extensively used in the biological sciences and beyond. Due to its ease of use, recordable macro language, and extensible plug-in architecture, ImageJ enjoys contributions from non-programmers, amateur programmers, and professional developers alike. Enabling such a diversity of contributors has resulted in a large community that spans the biological and physical sciences. However, a rapidly growing user base, diverging plugin suites, and technical limitations have revealed a clear need for a concerted software engineering effort to support emerging imaging paradigms, to ensure the software's ability to handle the requirements of modern science. Due to these new and emerging challenges in scientific imaging, ImageJ is at a critical development crossroads. We present ImageJ2, a total redesign of ImageJ offering a host of new functionality. It separates concerns, fully decoupling the data model from the user interface. It emphasizes integration with external applications to maximize interoperability. Its robust new plugin framework allows everything from image formats, to scripting languages, to visualization to be extended by the community. The redesigned data model supports arbitrarily large, N-dimensional datasets, which are increasingly common in modern image acquisition. Despite the scope of these changes, backwards compatibility is maintained such that this new functionality can be seamlessly integrated with the classic ImageJ interface, allowing users and developers to migrate to these new methods at their own pace. ImageJ2 provides a framework engineered for flexibility, intended to support these requirements as well as accommodate future needs

SMiT: Local System Administration Across Disparate Environments Utilizing the Cloud

System administration can be tedious. Most IT departments maintain several (if not several hundred) computers, each of which requires periodic housecleaning: updating of software, clearing of log files, removing old cache files, etc. Compounding the problem is the computing environment itself. Because of the distributed nature of these computers, system administration time is often consumed in repetitive tasks that should be automated. Although current system administration tools exist, they are often centralized, unscalable, unintuitive, or inflexible. To meet the needs of system administrators and IT professionals, we developed the Script Management Tool (SMiT). SMiT is a web-based tool that permits administration of distributed computers from virtually anywhere via a common web browser. SMiT consists of a cloud-based server running on Google App Engine enabling users to intuitively create, manage, and deploy administration scripts. To support local execution of scripts, SMiT provides an execution engine that runs on the organization’s local machines and communicates with the server to fetch scripts, execute them, and deliver results back to the server. Because of its distributed asynchronous architecture SMiT is scalable to thousands of machines. SMiT is also extensible to a wide variety of system administration tasks via its plugin architecture

The MMT API: A Generic MKM System

The MMT language has been developed as a scalable representation and interchange language for formal mathematical knowledge. It permits natural representations of the syntax and semantics of virtually all declarative languages while making MMT-based MKM services easy to implement. It is foundationally unconstrained and can be instantiated with specific formal languages. The MMT API implements the MMT language along with multiple backends for persistent storage and frontends for machine and user access. Moreover, it implements a wide variety of MMT-based knowledge management services. The API and all services are generic and can be applied to any language represented in MMT. A plugin interface permits injecting syntactic and semantic idiosyncrasies of individual formal languages.Comment: Conferences on Intelligent Computer Mathematics (CICM) 2013 The final publication is available at http://link.springer.com