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 booktitle = {Proceedings of the XSEDE16 Conference on Diversity, Big Data, and Science at Scale}
}

@article{
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@article{
 title = {Community science exemplars in seagrid science gateway: Apache airavata based implementation of advanced infrastructure},
 type = {article},
 year = {2016},
 pages = {1927-1939},
 volume = {80},
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 journal = {Procedia Computer Science}
}

@article{
 title = {Gathering requirements for advancing simulations in HPC infrastructures via science gateways},
 type = {article},
 year = {2016},
 identifiers = {[object Object]},
 keywords = {Computation theory; Large scale systems; Web crawl,Computational science; Computational simulation;,Distributed computer systems},
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 abstract = {Compute-intensive simulations are often based on complex scientific theories and necessitate high-performance computing (HPC) infrastructures to deliver results in reasonable time. While domain researchers are experts in their field and apply sophisticated theoretical models in computational simulations, they are not necessarily also HPC experts or IT specialists in general. Thus, they appreciate easy-to-use solutions tailored to their research, which hide the complex underlying computing and data infrastructures. Science gateways form such end-to-end solutions and their development for compute-intensive simulations necessitates expertise to connect HPC research infrastructures including grid and cloud infrastructures to support with the efficient access to such resources. HPC experts and IT specialists fulfilling this task may have only rudimentary knowledge about the research domain of a simulation. Thus, it is crucial that they gather the requirements of a research use case, which they aim to support efficiently via a science gateway.In the last 10 years quite a few web development frameworks, science gateway frameworks and APIs with different foci and strengths have evolved to support the developers of science gateways in implementing an intuitive solution for a target research domain. The selection of a suitable technology for a specific use case is essential and helps reducing the effort in implementing the science gateway by re-using existing software or frameworks. Thus, a solution for a user community can be provided more efficiently. This paper introduces the general architecture of science gateways, goes into detail for criteria to design science gateways efficiently and gives examples of mature science gateways and science gateway frameworks. © 2017 Elsevier B.V.},
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 author = {Gesing, S and Dooley, R and Pierce, M and Krüger, J and Grunzke, R and Herres-Pawlis, S and Hoffmann, A},
 journal = {Future Generation Computer Systems}
}

Compute-intensive simulations are often based on complex scientific theories and necessitate high-performance computing (HPC) infrastructures to deliver results in reasonable time. While domain researchers are experts in their field and apply sophisticated theoretical models in computational simulations, they are not necessarily also HPC experts or IT specialists in general. Thus, they appreciate easy-to-use solutions tailored to their research, which hide the complex underlying computing and data infrastructures. Science gateways form such end-to-end solutions and their development for compute-intensive simulations necessitates expertise to connect HPC research infrastructures including grid and cloud infrastructures to support with the efficient access to such resources. HPC experts and IT specialists fulfilling this task may have only rudimentary knowledge about the research domain of a simulation. Thus, it is crucial that they gather the requirements of a research use case, which they aim to support efficiently via a science gateway.In the last 10 years quite a few web development frameworks, science gateway frameworks and APIs with different foci and strengths have evolved to support the developers of science gateways in implementing an intuitive solution for a target research domain. The selection of a suitable technology for a specific use case is essential and helps reducing the effort in implementing the science gateway by re-using existing software or frameworks. Thus, a solution for a user community can be provided more efficiently. This paper introduces the general architecture of science gateways, goes into detail for criteria to design science gateways efficiently and gives examples of mature science gateways and science gateway frameworks. © 2017 Elsevier B.V.

@inProceedings{
 title = {GeoGateway: A system for analysis of UAVSAR data products},
 type = {inProceedings},
 year = {2016},
 pages = {210-213},
 institution = {IEEE},
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 booktitle = {Geoscience and Remote Sensing Symposium (IGARSS), 2016 IEEE International}
}

@inProceedings{
 title = {Cyberinfrastructure as a platform to facilitate effective collaboration between institutions and support collaboratories},
 type = {inProceedings},
 year = {2016},
 identifiers = {[object Object]},
 volume = {06-09-Nove},
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 abstract = {Researchers, scientists, engineers, granting agencies, and increasingly complex research problems have given rise to the scientific "collaboratory"-large organizations that span many institutions, with individual members working together to explore a particular phenomenon. These organizations require computational resources in order to support analyses and to provide platforms where the collaborators can interact. The XSEDE Community Infrastructure (XCI) group assists campuses in using their own resources and promotes the sharing of those resources in order to create collaboratories improving use of the nation's collective cyberinfrastructure. Currently XCI provides toolkits and training, and collaborates with organizations such as ACI-REF, XSEDE Campus Champions, and the Open Science Grid to identify tools and best practices that support the community. This paper discusses the progress in and barriers to developing a robust collaborative environment where computational resources can be shared.},
 bibtype = {inProceedings},
 author = {Coulter, E. and Knepper, R. and Pierce, M. and Fischer, J. and Lifka, D. and Stewart, C. and Hallock, B. and Navarro, J.P.},
 booktitle = {Proceedings ACM SIGUCCS User Services Conference}
}

Researchers, scientists, engineers, granting agencies, and increasingly complex research problems have given rise to the scientific "collaboratory"-large organizations that span many institutions, with individual members working together to explore a particular phenomenon. These organizations require computational resources in order to support analyses and to provide platforms where the collaborators can interact. The XSEDE Community Infrastructure (XCI) group assists campuses in using their own resources and promotes the sharing of those resources in order to create collaboratories improving use of the nation's collective cyberinfrastructure. Currently XCI provides toolkits and training, and collaborates with organizations such as ACI-REF, XSEDE Campus Champions, and the Open Science Grid to identify tools and best practices that support the community. This paper discusses the progress in and barriers to developing a robust collaborative environment where computational resources can be shared.

@inProceedings{
 title = {The apache airavata application programming interface: Overview and evaluation with the Ultrascan Science Gateway},
 type = {inProceedings},
 year = {2015},
 identifiers = {[object Object]},
 keywords = {Application programming interfaces (API),Cloud computing; Computer circuits; Open source so,Cyber infrastructures; Execution management; Gate},
 pages = {25-29},
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 abstract = {We present an overview of the Apache Airavata Application Programming Interface (API), describe the design choices and implementation details, and describe how API methods map to the UltraScan Science Gateway use case. The Airavata API is designed to standardize access to Airavata services that provide gateways with scientific application metadata and execution management. The API also represents an important milestone in the development of Science Gateway Platform as a Service (SciGaP), a hosted, multi-tenanted gateway service based on open source Airavata software. The UltraScan gateway is a production XSEDE gateway that has been using Airavata services for over three years through customized interfaces and represents a stringent test of the API design and implementation. © 2014 IEEE.},
 bibtype = {inProceedings},
 author = {Pierce, M and Marru, S and Demeler, B and Singh, R and Gorbet, G},
 booktitle = {Proceedings of GCE 2014: 9th Gateway Computing Environments Workshop, held in conjunction with SC 2014: The International Conference for High Performance Computing, Networking, Storage and Analysis}
}

We present an overview of the Apache Airavata Application Programming Interface (API), describe the design choices and implementation details, and describe how API methods map to the UltraScan Science Gateway use case. The Airavata API is designed to standardize access to Airavata services that provide gateways with scientific application metadata and execution management. The API also represents an important milestone in the development of Science Gateway Platform as a Service (SciGaP), a hosted, multi-tenanted gateway service based on open source Airavata software. The UltraScan gateway is a production XSEDE gateway that has been using Airavata services for over three years through customized interfaces and represents a stringent test of the API design and implementation. © 2014 IEEE.

@inProceedings{
 title = {Authentication and authorization considerations for a multi-tenant service},
 type = {inProceedings},
 year = {2015},
 identifiers = {[object Object]},
 pages = {29-35},
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 abstract = {Distributed cyberinfrastructure requires users (and machines) to perform some sort of authentication and authorization (together simply known as auth). In the early days of computing, authentication was performed with just a username and password combination, and this is still prevalent today. But during the past several years, we have seen an evolution of approaches and protocols for auth: Kerberos, SSH keys, X.509, OpenID, API keys, OAuth, and more. Not surprisingly, there are trade-offs, both technical and social, for each approach. The NSF Science Gateway communities have had to deal with a variety of auth issues. However, most of the early gateways were rather restrictive in their model of access and development. The practice of using community credentials (certificates), a well-intentioned idea to alleviate restrictive access, still posed a barrier to researchers and challenges for security and auditing. And while the web portal-based gateway clients offered users easy access from a browser, both the interface and the back-end functionality were constrained in the flexibility and extensibility they could provide. Designing a well-defined application programming interface (API) to fine-grained, generic gateway services (on secure, hosted cyberinfrastructure), together with an auth approach that has a lower barrier to entry, will hopefully present a more welcoming environment for both users and developers. This paper provides a review and some thoughts on these topics, with a focus on the role of auth between a Science Gateway and a service provider.},
 bibtype = {inProceedings},
 author = {Heiland, R and Koranda, S and Marru, S and Pierce, M and Welch, V},
 booktitle = {SCREAM 2015 - Proceedings of the 2015 Workshop on the Science of Cyberinfrastructure: Research, Experience, Applications and Models, Part of HPDC 2015}
}

Distributed cyberinfrastructure requires users (and machines) to perform some sort of authentication and authorization (together simply known as auth). In the early days of computing, authentication was performed with just a username and password combination, and this is still prevalent today. But during the past several years, we have seen an evolution of approaches and protocols for auth: Kerberos, SSH keys, X.509, OpenID, API keys, OAuth, and more. Not surprisingly, there are trade-offs, both technical and social, for each approach. The NSF Science Gateway communities have had to deal with a variety of auth issues. However, most of the early gateways were rather restrictive in their model of access and development. The practice of using community credentials (certificates), a well-intentioned idea to alleviate restrictive access, still posed a barrier to researchers and challenges for security and auditing. And while the web portal-based gateway clients offered users easy access from a browser, both the interface and the back-end functionality were constrained in the flexibility and extensibility they could provide. Designing a well-defined application programming interface (API) to fine-grained, generic gateway services (on secure, hosted cyberinfrastructure), together with an auth approach that has a lower barrier to entry, will hopefully present a more welcoming environment for both users and developers. This paper provides a review and some thoughts on these topics, with a focus on the role of auth between a Science Gateway and a service provider.

@inProceedings{
 title = {Apache Airavata as a laboratory: architecture and case study for component-based gateway middleware},
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 year = {2015},
 pages = {19-26},
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@inProceedings{
 title = {Disaster Response Tools for Decision Support and Data Discovery-E-DECIDER and GeoGateway},
 type = {inProceedings},
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 author = {Glasscoe, M T and Donnellan, A and Parker, J W and Granat, R A and Lyzenga, G A and Pierce, M E and Wang, J and Grant Ludwig, L and Eguchi, R T and Huyck, C K and others, undefined},
 booktitle = {AGU Fall Meeting Abstracts}
}

@article{
 title = {The GenApp framework integrated with Airavata for managed compute resource submissions},
 type = {article},
 year = {2015},
 pages = {4292-4303},
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@article{
 title = {Science gateways today and tomorrow: Positive perspectives of nearly 5000 members of the research community},
 type = {article},
 year = {2015},
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 abstract = {Science gateways are digital interfaces to advanced technologies that\nsupport science/engineering research/education. Frequently implemented\nas Web and mobile applications, they provide access to community\nresources such as software, data, collaboration tools, instrumentation,\nand high-performance computing. We anticipate opportunities for growth\nwithin a fragmented community. Through a large-scale survey, we measured\nthe extent and characteristics of the gateway community (reliance on\ngateways and nature of existing resources) to understand useful services\nand support for builders and users. We administered an online survey to\nnearly 29,000 principal investigators, senior administrators, and people\nwith gateway affiliations. Nearly 5000 respondents represented diverse\nexpertise and geography. The majority of researchers/educators indicated\nthat specialized online resources were important to their work. They\nchoose technologies by asking colleagues and looking for documentation,\ndemonstrated reliability, and technical support; adaptability via\ncustomizing or open-source standards was another priority. Research\ngroups commonly provide their own resources, but public/academic\ninstitutions and commercial services also provide substantial offerings.\nApplication creators and administrators welcome external services\nproviding guidance such as technology selection, sustainability\nplanning, evaluation, and specialized expertise (e.g., quality assurance\nand design). Technologies are diverse, so flexibility and ongoing\ncommunity input are essential, as is offering specific, easy-to-access\ntraining, community support, and professional development. Copyright (c)\n2015 John Wiley & Sons, Ltd.},
 bibtype = {article},
 author = {Lawrence, Katherine A. and Zentner, Michael and Wilkins-Diehr, Nancy and Wernert, Julie A. and Pierce, Marlon and Marru, Suresh and Michael, Scott},
 journal = {Concurrency Computation },
 number = {16}
}

Science gateways are digital interfaces to advanced technologies that\nsupport science/engineering research/education. Frequently implemented\nas Web and mobile applications, they provide access to community\nresources such as software, data, collaboration tools, instrumentation,\nand high-performance computing. We anticipate opportunities for growth\nwithin a fragmented community. Through a large-scale survey, we measured\nthe extent and characteristics of the gateway community (reliance on\ngateways and nature of existing resources) to understand useful services\nand support for builders and users. We administered an online survey to\nnearly 29,000 principal investigators, senior administrators, and people\nwith gateway affiliations. Nearly 5000 respondents represented diverse\nexpertise and geography. The majority of researchers/educators indicated\nthat specialized online resources were important to their work. They\nchoose technologies by asking colleagues and looking for documentation,\ndemonstrated reliability, and technical support; adaptability via\ncustomizing or open-source standards was another priority. Research\ngroups commonly provide their own resources, but public/academic\ninstitutions and commercial services also provide substantial offerings.\nApplication creators and administrators welcome external services\nproviding guidance such as technology selection, sustainability\nplanning, evaluation, and specialized expertise (e.g., quality assurance\nand design). Technologies are diverse, so flexibility and ongoing\ncommunity input are essential, as is offering specific, easy-to-access\ntraining, community support, and professional development. Copyright (c)\n2015 John Wiley & Sons, Ltd.

@article{
 title = {Potential for a large earthquake near Los Angeles inferred from the 2014 La Habra earthquake},
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 year = {2015},
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 journal = {Earth and Space Science},
 number = {9}
}

@article{
 title = {Multihazard simulation and cyberinfrastructure},
 type = {article},
 year = {2015},
 pages = {2083-2085},
 volume = {172},
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 author = {Donnellan, Andrea and Williams, Charles and Pierce, Marlon},
 journal = {Pure and Applied Geophysics},
 number = {8}
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@article{
 title = {E-decider: Using earth science data and modeling tools to develop decision support for earthquake disaster response},
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 pages = {2305-2324},
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@article{
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@article{
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@inProceedings{
 title = {An Overview of the XSEDE Extended Collaborative Support Program},
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 abstract = {The Extreme Science and Engineering Discovery Environment (XSEDE) is a flagship cyberinfrastructure project funded by the US National Science Foundation (NSF). XSEDE’s Extended Collaborative Support Services (ECSS) program is a significant component of the XSEDE effort, dedicated to extended engagements with our user community which transform their research. We describe the organization, operation and some highlights of the program in this submission. © Springer International Publishing Switzerland 2016.},
 bibtype = {inProceedings},
 author = {Wilkins-Diehr, Nancy and Sanielevici, Sergiu and Alameda, Jay and Cazes, John and Crosby, Lonnie and Pierce, Marlon and Roskies, Ralph},
 booktitle = {International Conference on Supercomputing}
}

The Extreme Science and Engineering Discovery Environment (XSEDE) is a flagship cyberinfrastructure project funded by the US National Science Foundation (NSF). XSEDE’s Extended Collaborative Support Services (ECSS) program is a significant component of the XSEDE effort, dedicated to extended engagements with our user community which transform their research. We describe the organization, operation and some highlights of the program in this submission. © Springer International Publishing Switzerland 2016.

@inProceedings{
 title = {Science gateways-leveraging modeling and simulations in HPC infrastructures via increased usability},
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@inProceedings{
 title = {GenApp module execution and airavata integration},
 type = {inProceedings},
 year = {2015},
 identifiers = {[object Object]},
 keywords = {Compute resources; Direct execution; Execution mo,Computer aided software engineering; Middleware; R,Computer circuits},
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 abstract = {A new framework (GenApp) for rapid generation of scientific applications running on a variety of systems including science gateways has recently been developed. This framework builds a user interface for a variety of target environments on a collection of executable modules. The method for execution of the modules is unrestricted by the framework. Initial implementation supports direct execution, and not queue managed submission, on a user's workstation, a web server, or a compute resource accessible from the web server. After a successful workshop, it was discovered that long running jobs would sometimes fail, due to the loss of a TCP connection. This precipitated an improvement to the execution method with the bonus of easily allowing multiple web clients to attach to the running job. Finally, to support a diversity of queue managed compute resources, a Google Summer of Code project was completed to integrate the Apache Airavata middleware as an additional execution model within the GenApp framework. © 2014 IEEE.},
 bibtype = {inProceedings},
 author = {Brookes, E H and Anjum, N and Curtis, J E and Marru, S and Singh, R and Pierce, M},
 booktitle = {Proceedings of GCE 2014: 9th Gateway Computing Environments Workshop, held in conjunction with SC 2014: The International Conference for High Performance Computing, Networking, Storage and Analysis}
}

A new framework (GenApp) for rapid generation of scientific applications running on a variety of systems including science gateways has recently been developed. This framework builds a user interface for a variety of target environments on a collection of executable modules. The method for execution of the modules is unrestricted by the framework. Initial implementation supports direct execution, and not queue managed submission, on a user's workstation, a web server, or a compute resource accessible from the web server. After a successful workshop, it was discovered that long running jobs would sometimes fail, due to the loss of a TCP connection. This precipitated an improvement to the execution method with the bonus of easily allowing multiple web clients to attach to the running job. Finally, to support a diversity of queue managed compute resources, a Google Summer of Code project was completed to integrate the Apache Airavata middleware as an additional execution model within the GenApp framework. © 2014 IEEE.

@inProceedings{
 title = {Sustained software for cyberinfrastructure - Analyses of successful efforts with a focus on NSF-funded software},
 type = {inProceedings},
 year = {2015},
 identifiers = {[object Object]},
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 abstract = {Reliable software that provides needed functionality is clearly essential for an effective distributed cyberinfrastructure (CI) that supports comprehensive, balanced, and flexible distributed CI. Effective distributed cyberinfrastructure, in turn, supports science and engineering applications. The purpose of this study was to understand what factors lead to software projects being well sustained over the long run, focusing on software created with funding from the US National Science Foundation (NSF) and/or used by researchers funded by the NSF. We surveyed NSF-funded researchers and performed in-depth studies of software projects that have been sustained over many years. Successful projects generally used open-source software licenses and employed good software engineering practices and test practices. However, many projects that have not been well sustained over time also met these criteria. The features that stood out about successful projects included deeply committed leadership and some sort of user forum or conference at least annually. In some cases, software project leaders have employed multiple financial strategies over the course of a decades-old software project. Such well-sustained software is used in major distributed CI projects that support thousands of users, and this software is critical to the operation of major distributed CI facilities in the US. The findings of our study identify some characteristics of software that is relevant to the NSF-supported research community, and that has been sustained over many years.},
 bibtype = {inProceedings},
 author = {Stewart, C.A. and Barnett, W.K. and Wernert, E.A. and Wernert, J.A. and Welch, V. and Knepper, R.},
 booktitle = {SCREAM 2015 - Proceedings of the 2015 Workshop on the Science of Cyberinfrastructure: Research, Experience, Applications and Models, Part of HPDC 2015}
}

Reliable software that provides needed functionality is clearly essential for an effective distributed cyberinfrastructure (CI) that supports comprehensive, balanced, and flexible distributed CI. Effective distributed cyberinfrastructure, in turn, supports science and engineering applications. The purpose of this study was to understand what factors lead to software projects being well sustained over the long run, focusing on software created with funding from the US National Science Foundation (NSF) and/or used by researchers funded by the NSF. We surveyed NSF-funded researchers and performed in-depth studies of software projects that have been sustained over many years. Successful projects generally used open-source software licenses and employed good software engineering practices and test practices. However, many projects that have not been well sustained over time also met these criteria. The features that stood out about successful projects included deeply committed leadership and some sort of user forum or conference at least annually. In some cases, software project leaders have employed multiple financial strategies over the course of a decades-old software project. Such well-sustained software is used in major distributed CI projects that support thousands of users, and this software is critical to the operation of major distributed CI facilities in the US. The findings of our study identify some characteristics of software that is relevant to the NSF-supported research community, and that has been sustained over many years.

@inProceedings{
 title = {Apache Airavata: design and directions of a science gateway framework},
 type = {inProceedings},
 year = {2014},
 identifiers = {[object Object]},
 keywords = {Apache software foundations,Application manageme,Application programming interfaces (API),Design,Distributed computer systems},
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 abstract = {This paper provides an overview of the Apache Airavata software system for science gateways. Gateways use Airavata to manage application and workflow executions on a range of backend resources (grids, computing clouds, and local clusters). Airavata's design goal is to provide component abstractions for major tasks required to provide gateway application management. Components are not directly accessed but are instead exposed through a client Application Programming Interface. This design allows gateway developers to take full advantage of Airavata's capabilities, and Airavata developers (including those interested in middleware research) to modify Airavata's implementations and behavior. This is particularly important as Airavata evolves to become a scalable, elastic "platform as a service" for science gateways. We illustrate the capabilities of Airavata through the discussion of usage vignettes. As an Apache Software Foundation project, Airavata's open community governance model is as important as its software base. We discuss how this works within Airavata and how it may be applicable to other distributed computing infrastructure and cyber infrastructure efforts. © 2014 IEEE.},
 bibtype = {inProceedings},
 author = {Pierce, Marlon E and Marru, Suresh and Gunathilake, Lahiru and Wijeratne, Don Kushan and Singh, Raminder and Wimalasena, Chathuri and Ratnayaka, Shameera and Pamidighantam, Sudhakar and Kanewala, T A and Singh, Raminder and Wijeratne, S and Wimalasena, Chathuri and Herath, C and Chinthaka, E and Mattmann, C and Slominski, A and Tangchaisin, P},
 booktitle = {Proceedings - 6th International Workshop on Science Gateways, IWSG 2014}
}

This paper provides an overview of the Apache Airavata software system for science gateways. Gateways use Airavata to manage application and workflow executions on a range of backend resources (grids, computing clouds, and local clusters). Airavata's design goal is to provide component abstractions for major tasks required to provide gateway application management. Components are not directly accessed but are instead exposed through a client Application Programming Interface. This design allows gateway developers to take full advantage of Airavata's capabilities, and Airavata developers (including those interested in middleware research) to modify Airavata's implementations and behavior. This is particularly important as Airavata evolves to become a scalable, elastic "platform as a service" for science gateways. We illustrate the capabilities of Airavata through the discussion of usage vignettes. As an Apache Software Foundation project, Airavata's open community governance model is as important as its software base. We discuss how this works within Airavata and how it may be applicable to other distributed computing infrastructure and cyber infrastructure efforts. © 2014 IEEE.

@inProceedings{
 title = {E-DECIDER Rapid Response to the M 6.0 South Napa Earthquake},
 type = {inProceedings},
 year = {2014},
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 author = {Glasscoe, M T and Parker, J W and Pierce, M E and Wang, J and Eguchi, R T and Huyck, C K and Hu, Z and Chen, Z and Yoder, M R and Rundle, J B and others, undefined},
 booktitle = {AGU Fall Meeting Abstracts}
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@techreport{
 title = {CTSC Recommended Security Practices for Thrift Clients: Case Study-Evernote},
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@inProceedings{
 title = {Who Cares About Science Gateways? A Large-Scale Survey of Community Use and Needs (Dataset)},
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 year = {2014},
 pages = {1-4},
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 author = {Lawrence, Katherine A and Wilkins-Diehr, Nancy and Wernert, Julie A and Pierce, Marlon and Zentner, Michael and Marru, Suresh and Wilkins-Diehr, Nancy and Wernert, Julie A and Pierce, Marlon and Marru, Suresh and Michael, Scott and Zentner, Michael and Marru, Suresh and Wilkins-Diehr, Nancy and Wernert, Julie A and Pierce, Marlon and Marru, Suresh and Michael, Scott},
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@inProceedings{
 title = {E-DECIDER Disaster Response and Decision Support Cyberinfrastructure: Technology and Challenges},
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@inProceedings{
 title = {Integrating science gateways with xsede security: A survey of credential management approaches},
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@article{
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@article{
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@inProceedings{
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@inProceedings{
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@inProceedings{
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@inProceedings{
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@inProceedings{
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