Building a Vision for Reproducibility in the Cyberinfrastructure Ecosystem: Leveraging Community Efforts

Dylan Chapp, V. Stodden, M. Taufer
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引用次数: 1

Abstract

The scientific computing community has long taken a leadership role in understanding and assessing the relationship of reproducibility to cyberinfrastructure, ensuring that computational results - such as those from simulations - are "reproducible", that is, the same results are obtained when one re-uses the same input data, methods, software and analysis conditions. Starting almost a decade ago, the community has regularly published and advocated for advances in this area. In this article we trace this thinking and relate it to current national efforts, including the 2019 National Academies of Science, Engineering, and Medicine report on "Reproducibility and Replication in Science". To this end, this work considers high performance computing workflows that emphasize workflows combining traditional simulations (e.g. Molecular Dynamics simulations) with in situ analytics. We leverage an analysis of such workflows to (a) contextualize the 2019 National Academies of Science, Engineering, and Medicine report's recommendations in the HPC setting and (b) envision a path forward in the tradition of community driven approaches to reproducibility and the acceleration of science and discovery. The work also articulates avenues for future research at the intersection of transparency, reproducibility, and computational infrastructure that supports scientific discovery.
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建立网络基础设施生态系统可复制性的愿景:利用社区的努力
长期以来,科学计算界在理解和评估再现性与网络基础设施的关系方面一直发挥着领导作用,确保计算结果(如模拟结果)是“可再现的”,也就是说,当一个人重复使用相同的输入数据、方法、软件和分析条件时,获得相同的结果。从近十年前开始,该社区定期发表文章,并倡导在这一领域取得进展。在本文中,我们追溯了这一想法,并将其与当前的国家努力联系起来,包括2019年美国国家科学院、工程院和医学院关于“科学中的可重复性和复制性”的报告。为此,本工作考虑高性能计算工作流,强调将传统模拟(例如分子动力学模拟)与原位分析相结合的工作流。我们利用对这些工作流程的分析来(a)将2019年美国国家科学、工程和医学院报告在HPC环境下的建议置于背景下,(b)设想一条以社区驱动的方法传统为基础的前进道路,以实现可重复性和加速科学和发现。这项工作还阐明了未来在透明度、可重复性和支持科学发现的计算基础设施交叉领域的研究途径。
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