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Science Gateways and their role in Reproducibility Nancy Wilkins-Diehr San Diego Supercomputer Center

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Presentation on theme: "Science Gateways and their role in Reproducibility Nancy Wilkins-Diehr San Diego Supercomputer Center"— Presentation transcript:

1 Science Gateways and their role in Reproducibility Nancy Wilkins-Diehr San Diego Supercomputer Center wilkinsn@sdsc.edu

2 That reproducibility is a problem has already been established, but Brian Granger (IPython developer) talk at UCSD, May 2014 – Computing (thus software) is one of the foundations of data science – Important decisions being made on these data Political, financial, institutional, peer review system, social – Several recent examples of errors in academic data “Growth in a Time of Debt”, Reinhard and Rogoff (2010), Herndon, Ash, Pollin (critique, 2013) “Capital in the 21 st Century”, Piketty (2014) BICEP2 (2014)

3 Software designed for specific purposes May do what it does well, but if it’s not designed to enforce reproducibility it will be nearly impossible for a user to achieve that – Excel – almost impossible to design a reproducible experiment – Github – almost impossible not to design a reproducible experiment

4 Many have used science gateways to address reproducibility IPython notebooks – Perez, Fernando, Brian E. Granger, and C. P. S. L. Obispo. "An Open Source Framework For Interactive, Collaborative And Reproducible Scientific Computing And Education." (2013). Galaxy – Goecks, Jeremy, Anton Nekrutenko, and James Taylor. "Galaxy: a comprehensive approach for supporting accessible, reproducible, and transparent computational research in the life sciences." Genome Biol 11.8 (2010): R86. VisTrails – Freire, Juliana. "Making computations and publications reproducible with vistrails." Computing in Science & Engineering 14.4 (2012): 18-25. nanoHUB – Lundstrom, Mark, and Gerhard Klimeck. "The NCN: science, simulation, and cyber services." Emerging Technologies-Nanoelectronics, 2006 IEEE Conference on. IEEE, 2006.

5 Issues for discussion What issues do gateway designers need to consider for reproducibility so they can follow the Github model and not the Excel model? What happens when a software framework itself goes away? What needs to be considered? What does it mean to be reproducible for the long term? How long? How is this possible?


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