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

The space physics environment data analysis system (SPEDAS)

With the advent of the Heliophysics/Geospace System Observatory (H/GSO), a complement of multi-spacecraft missions and ground-based observatories to study the space environment, data retrieval, analysis, and visualization of space physics data can be daunting. The Space Physics Environment Data Analysis System (SPEDAS), a grass-roots software development platform (www.spedas.org), is now officially supported by NASA Heliophysics as part of its data environment infrastructure. It serves more than a dozen space missions and ground observatories and can integrate the full complement of past and upcoming space physics missions with minimal resources, following clear, simple, and well-proven guidelines. Free, modular and configurable to the needs of individual missions, it works in both command-line (ideal for experienced users) and Graphical User Interface (GUI) mode (reducing the learning curve for first-time users). Both options have “crib-sheets,” user-command sequences in ASCII format that can facilitate record-and-repeat actions, especially for complex operations and plotting. Crib-sheets enhance scientific interactions, as users can move rapidly and accurately from exchanges of technical information on data processing to efficient discussions regarding data interpretation and science. SPEDAS can readily query and ingest all International Solar Terrestrial Physics (ISTP)-compatible products from the Space Physics Data Facility (SPDF), enabling access to a vast collection of historic and current mission data. The planned incorporation of Heliophysics Application Programmer’s Interface (HAPI) standards will facilitate data ingestion from distributed datasets that adhere to these standards. Although SPEDAS is currently Interactive Data Language (IDL)-based (and interfaces to Java-based tools such as Autoplot), efforts are under-way to expand it further to work with python (first as an interface tool and potentially even receiving an under-the-hood replacement). We review the SPEDAS development history, goals, and current implementation. We explain its “modes of use” with examples geared for users and outline its technical implementation and requirements with software developers in mind. We also describe SPEDAS personnel and software management, interfaces with other organizations, resources and support structure available to the community, and future development plans.Published versio

UC Berkeley's Cory Hall: Evaluation of Challenges and Potential Applications of Building-to-Grid Implementation

From September 2009 through June 2010, a team of researchers developed, installed, and tested instrumentation on the energy flows in Cory Hall on the UC Berkeley campus to create a Building-to-Grid testbed. The UC Berkeley team was headed by Professor David Culler, and assisted by members from EnerNex, Lawrence Berkeley National Laboratory, California State University Sacramento, and the California Institute for Energy & Environment. While the Berkeley team mapped the load tree of the building, EnerNex researched types of meters, submeters, monitors, and sensors to be used (Task 1). Next the UC Berkeley team analyzed building needs and designed the network of metering components and data storage/visualization software (Task 2). After meeting with vendors in January, the UCB team procured and installed the components starting in late March (Task 3). Next, the UCB team tested and demonstrated the system (Task 4). Meanwhile, the CSUS team documented the methodology and steps necessary to implement a testbed (Task 5) and Harold Galicer developed a roadmap for the CSUS Smart Grid Center with results from the testbed (Task 5a) and evaluated the Cory Hall implementation process (Task 5b). The CSUS team also worked with local utilities to develop an approach to the energy information communication link between buildings and the utility (Task 6). The UC Berkeley team then prepared a roadmap to outline necessary technology development for Building-to-Grid, and presented the results of the project in early July (Task 7). Finally, CIEE evaluated the implementation, noting challenges and potential applications of Building-to-Grid (Task 8). These deliverables are available at the i4Energy site: http://i4energy.org/

Coupling Methodology within the Software Platform Alliances

CEA, ANDRA and EDF are jointly developing the software platform ALLIANCES which aim is to produce a tool for the simulation of nuclear waste storage and disposal repository. This type of simulations deals with highly coupled thermo-hydro-mechanical and chemical (T-H-M-C) processes. A key objective of Alliances is to give the capability for coupling algorithms development between existing codes. The aim of this paper is to present coupling methodology use in the context of this software platform.Comment: 7 page