AGMIAL: implementing an annotation strategy for prokaryote genomes as a distributed system

We have implemented a genome annotation system for prokaryotes called AGMIAL. Our approach embodies a number of key principles. First, expert manual annotators are seen as a critical component of the overall system; user interfaces were cyclically refined to satisfy their needs. Second, the overall process should be orchestrated in terms of a global annotation strategy; this facilitates coordination between a team of annotators and automatic data analysis. Third, the annotation strategy should allow progressive and incremental annotation from a time when only a few draft contigs are available, to when a final finished assembly is produced. The overall architecture employed is modular and extensible, being based on the W3 standard Web services framework. Specialized modules interact with two independent core modules that are used to annotate, respectively, genomic and protein sequences. AGMIAL is currently being used by several INRA laboratories to analyze genomes of bacteria relevant to the food-processing industry, and is distributed under an open source license

Zero-Fidelity Simulation: Engaging Team Coordination without Physical, Functional, or Psychological Re-Creation

Team coordination is essential across domains, enabling efficiency and safety. As technology improves, our temptation is to simulate with ever-higher fidelity, by making simulators re-create reality through their physical interfaces, functionality, and by making participants believe they are undertaking the simulated task. However, high-fidelity simulations often miss salient human-human work practices. We introduce the concept of zero-fidelity simulation (ZFS), a move away from literal high-fidelity mimesis of the concrete environment. ZFS alternatively models cooperation and communication as the basis of simulation. The ZFS Team Coordination Game (TeC) is developed from observation of fire emergency response work practice. We identify ways in which team members are mutually dependent on one another for information, and use these as the basis for the ZFS game design. The design creates a need for cooperation by restricting individual activity and requiring communication. The present research analyzes the design of interdependence in the validated ZFS TeC game. We successfully simulate interdependence between roles in emergency response without simulating the concrete environment

Requirements for building information modeling based lean production management systems for construction

Smooth flow of production in construction is hampered by disparity between individual trade teams' goals and the goals of stable production flow for the project as a whole. This is exacerbated by the difficulty of visualizing the flow of work in a construction project. While the addresses some of the issues in Building information modeling provides a powerful platform for visualizing work flow in control systems that also enable pull flow and deeper collaboration between teams on and off site. The requirements for implementation of a BIM-enabled pull flow construction management software system based on the Last Planner System™, called ‘KanBIM’, have been specified, and a set of functional mock-ups of the proposed system has been implemented and evaluated in a series of three focus group workshops. The requirements cover the areas of maintenance of work flow stability, enabling negotiation and commitment between teams, lean production planning with sophisticated pull flow control, and effective communication and visualization of flow. The evaluation results show that the system holds the potential to improve work flow and reduce waste by providing both process and product visualization at the work face

Why and How Your Traceability Should Evolve: Insights from an Automotive Supplier

Traceability is a key enabler of various activities in automotive software and systems engineering and required by several standards. However, most existing traceability management approaches do not consider that traceability is situated in constantly changing development contexts involving multiple stakeholders. Together with an automotive supplier, we analyzed how technology, business, and organizational factors raise the need for flexible traceability. We present how traceability can be evolved in the development lifecycle, from early elicitation of traceability needs to the implementation of mature traceability strategies. Moreover, we shed light on how traceability can be managed flexibly within an agile team and more formally when crossing team borders and organizational borders. Based on these insights, we present requirements for flexible tool solutions, supporting varying levels of data quality, change propagation, versioning, and organizational traceability.Comment: 9 pages, 3 figures, accepted in IEEE Softwar

THE COLUMBUS GROUND SEGMENT – A PRECURSOR FOR FUTURE MANNED MISSIONS

In the beginning the space programs were self standing national activities, often in competition to other nations. Today space flight becomes more and more an international task. Complex space mission and deep space explorations are not longer to be stemmed by one agency or nation alone but are joint activities of several nations. The best example for such a joint (ad-) venture at the moment is the International Space Station ISS. Such international activities define complete new requirements for the supporting ground segments. The world-wide distribution of a ground segment is not any longer limited to a network of ground stations with the aim to provide a good coverage of the space craft. The coverage is sometimes – like for the ISSanyway ensured by using a relay satellite system instead. In addition to the enhanced down- and uplink methods a ground segment is aimed to connect the different centres of competence of all participating agencies/nations. From the space craft operations point of view such transnational ground segments are required to support distributed and shared operations in a predefined decision/commanding hierarchy. This has to be taken into account in the technical topology as well as for the operational set-up and teaming. Last not least increases the duration of missions, which requires a certain flexibility of the ground segment and long-term maintenance strategies for the ground segment with a special emphasis on nonintrusive replacements. The Russian space station MIR has been in the orbit for about 15 years, the ISS is currently targeted for 2020, to be for over 20 years in space

Living Boundary Objects to Support Agile Inter-Team Coordination at Scale

Context: In the last decades, large-scale agile development has received increasing attention, as also organizations with many stakeholders and large systems aim for higher development speed and focus on customer value. A recognized research challenge in large-scale agile development relates to inter-team coordination. To coordinate effectively, organizations need to identify what knowledge is required across team borders and how it can be managed over time. Knowledge is potentially manifested in boundary objects – artifacts that create a shared understanding between teams (e.g., requirements or architecture descriptions). Traceability between artifacts is a key necessity to manage change in agile contexts. Moreover, agile practitioners aim to reduce the documentation effort to absolutely crucial artifacts and trace links.Objective: This thesis aims to improve how practitioners can manage knowledge for inter-team coordination in large-scale agile development. We focus especially on how knowledge can be made explicit in artifacts and trace links that are evolved over time. Method: We empirically investigated problems and developed solutions using a research approach that was inspired by design science. Case studies, an in-depth design science study, a mixed methods study, and surveys were performed. Using this mix of research methods, we leveraged both qualitative and quantitative data. Results: We coined the concept of living boundary objects to manage knowledge for inter-team coordination. Living boundary objects are boundary objects that are traced to other artifacts, kept up to date, and serve for inter-team coordination. They should be established early in the lifecycle to create a common understanding of the product to be developed. We scrutinized architecture descriptions, interfaces, and requirements and traceability information models as examples of concrete boundary objects. We recommend establishing alignment using a common high-level structure, but also supporting diverse knowledge management practices to fulfill the individual needs of agile teams. Conclusions: Our contributions help to establish knowledge management practices that are considered beneficial by practitioners and focus on the crucial aspects to align agile teams on. We suggest concepts and requirements for knowledge management tools that take the distinct role of living boundary objects into consideration and can be adjusted as organizations\u27 needs evolve

Coordination and control in project-based work: digital objects and infrastructures for delivery

A major infrastructure project is used to investigate the role of digital objects in the coordination of engineering design work. From a practice-based perspective, research emphasizes objects as important in enabling cooperative knowledge work and knowledge sharing. The term ‘boundary object’ has become used in the analysis of mutual and reciprocal knowledge sharing around physical and digital objects. The aim is to extend this work by analysing the introduction of an extranet into the public–private partnership project used to construct a new motorway. Multiple categories of digital objects are mobilized in coordination across heterogeneous, cross-organizational groups. The main findings are that digital objects provide mechanisms for accountability and control, as well as for mutual and reciprocal knowledge sharing; and that different types of objects are nested, forming a digital infrastructure for project delivery. Reconceptualizing boundary objects as a digital infrastructure for delivery has practical implications for management practices on large projects and for the use of digital tools, such as building information models, in construction. It provides a starting point for future research into the changing nature of digitally enabled coordination in project-based work