RefXAS:开放式 X 射线吸收光谱数据库。

IF 2.5 3区 物理与天体物理
Journal of Synchrotron Radiation Pub Date : 2024-09-01 Epub Date: 2024-08-27 DOI:10.1107/S1600577524006751
Sebastian Paripsa, Abhijeet Gaur, Frank Förste, Dmitry E Doronkin, Wolfgang Malzer, Christopher Schlesiger, Birgit Kanngießer, Edmund Welter, Jan Dierk Grunwaldt, Dirk Lützenkirchen-Hecht
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引用次数: 0

摘要

在 DAPHNE4NFDI 项目下,建立了 X 射线吸收光谱(XAS)参考数据库 RefXAS。为此,我们开发了一种方法,使用户能够通过专门网站提交原始数据集及其相关元数据,以便纳入数据库。数据库的实施包括向科学目录上传元数据和通过对象存储上传文件,并通过网络服务器提供自动查询功能以及数据和文件的可视化。根据测量模式,制定了质量标准,用于自动检查任何上传的数据。在本工作中,讨论了可重复使用的重要元数据字段以及结果的可重复性(FAIR 数据原则)。还制定并评估了上传到数据库的数据的质量标准。此外,还探讨了现有 XAS 数据/文件格式的可用性和互操作性。介绍了第一版 RefXAS 数据库原型,其特点包括:人工验证程序(目前正在测试专为馆长设计的新用户界面);用户友好的登陆页面;完整的数据集列表;高级搜索功能;简化的上传流程;最后,通过 MongoDB、PostgreSQL 和相关 API(数据)文件进行服务器端自动验证和(元)数据存储。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
RefXAS: an open access database of X-ray absorption spectra.

Under DAPHNE4NFDI, the X-ray absorption spectroscopy (XAS) reference database, RefXAS, has been set up. For this purpose, we developed a method to enable users to submit a raw dataset, with its associated metadata, via a dedicated website for inclusion in the database. Implementation of the database includes an upload of metadata to the scientific catalogue and an upload of files via object storage, with automated query capabilities through a web server and visualization of the data and files. Based on the mode of measurements, quality criteria have been formulated for the automated check of any uploaded data. In the present work, the significant metadata fields for reusability, as well as reproducibility of results (FAIR data principles), are discussed. Quality criteria for the data uploaded to the database have been formulated and assessed. Moreover, the usability and interoperability of available XAS data/file formats have been explored. The first version of the RefXAS database prototype is presented, which features a human verification procedure, currently being tested with a new user interface designed specifically for curators; a user-friendly landing page; a full list of datasets; advanced search capabilities; a streamlined upload process; and, finally, a server-side automatic authentication and (meta-) data storage via MongoDB, PostgreSQL and (data-) files via relevant APIs.

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来源期刊
Journal of Synchrotron Radiation
Journal of Synchrotron Radiation INSTRUMENTS & INSTRUMENTATIONOPTICS&-OPTICS
CiteScore
5.60
自引率
12.00%
发文量
289
审稿时长
1 months
期刊介绍: Synchrotron radiation research is rapidly expanding with many new sources of radiation being created globally. Synchrotron radiation plays a leading role in pure science and in emerging technologies. The Journal of Synchrotron Radiation provides comprehensive coverage of the entire field of synchrotron radiation and free-electron laser research including instrumentation, theory, computing and scientific applications in areas such as biology, nanoscience and materials science. Rapid publication ensures an up-to-date information resource for scientists and engineers in the field.
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