Comprehensive Cyberinfrastructure Research Articles

Developing interoperable, accessible software via the atomic, molecular, and optical sciences gateway: A case study of the B-spline atomic R-matrix code graphical user interface.

The Atomic, Molecular, and Optical Science (AMOS) Gateway is a comprehensive cyberinfrastructure for research and educational activities in computational AMO science. The B-Spline atomic R-Matrix (BSR) suite of programs is one of several computer programs currently available on the gateway. It is an excellent example of the gateway's potential to increase the scientific productivity of AMOS users. While the suite is available to be used in batch mode, its complexity does not make it well-suited to the approach taken in the gateway's default setup. The complexity originates from the need to execute many different computations and to construct generally complex workflows, requiring numerous input files that must be used in a specific sequence. The BSR graphical user interface described in this paper was developed to considerably simplify employing the BSR codes on the gateway, making BSR available to a large group of researchers and students interested in AMO science.

Elevating the RRE Framework for Geospatial Analysis with Visual Programming Platforms: An Exploration with Geospatial Analytics Extension for KNIME

Reproducibility, replicability, and expandability (RRE) have emerged as fundamental concerns in the realm of scientific research and development. Wherein, devising effective solutions for RRE within geospatial analysis stands out as a particularly critical challenge that demands immediate attention. Although there has been an evolution from basic reproducibility of code and data to a more comprehensive cyberinfrastructure, this integrated solution is still grappling with issues of limited user accessibility, steep learning curves particularly in coding skills, and difficulties in achieving collaboration with other data science platforms This study proposes a framework that combines open-source GIS with visual programming platforms, grounded in principles of standardization and educationalization, to advance the RRE framework in geographic analysis. Using the Geospatial Analytics Extension for KNIME as an example, we demonstrate the platform’s adaptability and utility through case studies in a recent textbook with an in-depth illustration of spatial accessibility analysis, specifically via the Generalized Two-Step Floating Catchment Area (G2SFCA) method. Our findings shed light on the transformative potential of such an integrative strategy, offer fresh perspectives for enhancing the RRE in geospatial analysis and craft a well-structured, intuitive, and extensive GIS knowledge tree.

Batchsubmit: a high‐volume batch submission system for earthquake engineering simulation

SUMMARYNetwork for Earthquake Engineering Simulation (NEES) is a network of 14 earthquake engineering labs distributed across the USA. As a part of the NEES effort NEESComm operates a comprehensive cyberinfrastructure that consists of the NEEShub and the NEES Project Warehouse. NEESComm provides consistent access to several high performance computing (HPC) venues. These venues include Extreme Science and Engineering Discovery Environment, the Open Science Grid, Purdue Supercomputers, and NEEShub servers. In this paper, we describe the system we developed, batchsubmit, which allows NEES researchers to make use of all these venues through the NEEShub science gateway. Copyright © 2014 John Wiley & Sons, Ltd.

Health Cyberinfrastructure for Collaborative Use-Inspired Research and Practice

Rapid advances in information and networking technologies have greatly expanded the modes for conducting business and science. For the past two decades, the National Science Foundation (NSF) has been supporting efforts to develop a comprehensive cyberinfrastructure with the goal of transforming the nature of scientific investigations. More recently, the NIH began supporting efforts to develop a cyberinfrastructure of healthcare research and practice. However, the best structure and applications of cyberinfrastructure in health care have yet to be defined. To address these issues, the NIH and the Kay Center for E-Health Research at Claremont Graduate University sponsored a symposium on “Cyberinfrastructure for Public Health and Health Services: Research and Funding Directions.” The symposium convened researchers, practitioners, and federal funders to discuss how to further cyberinfrastructure systems and research in the public health and health services sectors. This paper synthesizes findings of the symposium, the goals of which were to determine the dynamics necessary for executing and utilizing cyberinfrastructure in public health and health services; examine the requirements of transdisciplinary collaboration; and identify future research directions. A multi-faceted conception of use-inspired research for cyberinfrastructure is developed. Use-inspired research aims to further basic theory but is grounded, inspired, and informed by practical problems. A cyberinfrastructure framework is presented that incorporates three intersecting dimensions: research–practice, health services–public health, and social–technical dimensions. Within this framework, this paper discusses the ways in which cyberinfrastructure provides opportunities to integrate across these dimensions to develop research and actions that can improve both clinical outcomes and public health.