The Oxford Common File Layout: A Common Approach to Digital Preservation

Hankinson, Andrew; Brower, Donald; Jefferies, Neil; Metz, R. Douglas; Morley, Julian; Warner, Simeon; Woods, Andrew

doi:10.3390/publications7020039

Cited by 5 publications

(8 citation statements)

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“…For the publication and archival of this data including the semantic documentation, several approaches have been proposed. These include bundling formats such as BagIt [ 41 ], Oxford Common File Layout (OCFL) [ 42 ], and RO-Crate [ 43 ], but also literate programming methods such as Jupyter Notebooks ( https://jupyter.org/ ) combine (parts of) research data, their analysis source code and results as well as their documentation. RO-Crate [ 43 ] is a mechanism that allows to bundle resources together with their associated metadata supporting the FAIR publication and archival of the research data.…”

Section: Related Workmentioning

confidence: 99%

Structure-based knowledge acquisition from electronic lab notebooks for research data provenance documentation

et al. 2022

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Background Electronic Laboratory Notebooks (ELNs) are used to document experiments and investigations in the wet-lab. Protocols in ELNs contain a detailed description of the conducted steps including the necessary information to understand the procedure and the raised research data as well as to reproduce the research investigation. The purpose of this study is to investigate whether such ELN protocols can be used to create semantic documentation of the provenance of research data by the use of ontologies and linked data methodologies. Methods Based on an ELN protocol of a biomedical wet-lab experiment, a retrospective provenance model of the raised research data describing the details of the experiment in a machine-interpretable way is manually engineered. Furthermore, an automated approach for knowledge acquisition from ELN protocols is derived from these results. This structure-based approach exploits the structure in the experiment’s description such as headings, tables, and links, to translate the ELN protocol into a semantic knowledge representation. To satisfy the Findable, Accessible, Interoperable, and Reuseable (FAIR) guiding principles, a ready-to-publish bundle is created that contains the research data together with their semantic documentation. Results While the manual modelling efforts serve as proof of concept by employing one protocol, the automated structure-based approach demonstrates the potential generalisation with seven ELN protocols. For each of those protocols, a ready-to-publish bundle is created and, by employing the SPARQL query language, it is illustrated that questions about the processes and the obtained research data can be answered. Conclusions The semantic documentation of research data obtained from the ELN protocols allows for the representation of the retrospective provenance of research data in a machine-interpretable way. Research Object Crate (RO-Crate) bundles including these models enable researchers to easily share the research data including the corresponding documentation, but also to search and relate the experiment to each other.

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Section: Related Workmentioning

confidence: 99%

Structure-based knowledge acquisition from electronic lab notebooks for research data provenance documentation

et al. 2022

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“…The Oxford Common File Layout (OCFL) is a "shared approach to filesystem layouts for institutional and preservation repositories." 42 OCFL is a specification for organizing digital objects in a way that supports preservation while being computationally efficient. It has several advantages for use in digital preservation, such as the ability to rebuild a repository with only the files, it's both human and machine readable, supports native error detection, allows objects to be efficiently versioned, and is designed to work with a variety of storage infrastructures.…”

Section: Oxford Common File Layoutmentioning

confidence: 99%

21st Century Technical Infrastructure for Digital Preservation

Tallman

2021

ITAL

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Digital preservation systems and practices are rooted in research and development efforts from the late 1990s and early 2000s when the cultural heritage sector started to tackle these challenges in isolation. Since then, the commercial sector has sought to solve similar challenges, using different technical strategies such as software defined storage and function-as-a-service. While commercial sector solutions are not necessarily created with long-term preservation in mind, they are well aligned with the digital preservation use case. The cultural heritage sector can benefit from adapting these modern approaches to increase sustainability and leverage technological advancements widely in use across Fortune 500 companies.

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“…Oxford Common File Layout (OCFL) (Hankinson et al, 2019) Iniciativa compuesta por participantes de Cornell, Stanford, DuraSpace, Oxford y Emory, la cual permitió el desarrollo de estrategias de almacenamiento robustas e independientes de la aplicación del repositorio institucional. El OCFL soporta la procedencia y el versionado a través de la captura de un historial de versiones para objetos y la provisión para la implementación de una auditoría.…”

Section: Gran Bretañaunclassified

“…Experiencias que relacionan modelos y arquitecturas para la preservación digital en repositorios institucionales. (Boté Vericad y Minguillón, 2012; Caplan, Kehoe y Pawletko, 2010; De Giusti y LujánVillarreal, 2018; De Giusti, 2014;Di Iorio et al, 2014; Di Iorio y Schaerf, 2013;Downs y Chen, 2010;Flathers, Kenyon y Gessler, 2017;Hallo Carrasco y de la Fuente, 2010;Houghton, 2017; Ivanova, 2011;Jurik et al, 2014; Kowalczyk, 2015;Palaiologk et al, 2012;Robertson y Borchert, 2014; Rodrigues Neto, Borges y Roque, 2017;Saini, 2018;Termens, Ribera y Locher, 2015; Xiaolong, Jianmin y Geyond, 2009;Hankinson et al, 2019; Azorín et al, 2020).…”

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“…En la Tabla III se deja registro de los diversos documentos revisados donde el lector puede ubicar el enfoque y nivel de las experiencias relacionadas con repositorios institucionales y preservación digital.Asimismo, los resultados muestran que más que utilizar una única solución que integre todos los requerimientos, se necesita de sistemas con estrategias, procesos y políticas claras que se puedan desarrollar a partir de la integración de diferentes modelos y software(Palaiologk et al, 2012). Igualmente, la cooperación y los acuerdos internacionales son imperantemente necesarios para definir esquemas de interoperabilidad, uso compartido de recursos y disminución de presupuestos(Silva et al, 2019;Hankinson et al, 2019; Anyaoku, Echedom y Baro, 2019). Esto último es fundamental ante la limitación de recursos financieros y la falta de personal técnico que se ocupe de estos procesos.…”

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Experiencias de gestión de los procesos de preservación digital a partir del modelo OAIS en repositorios institucionales

Ochoa-Gutiérrez¹,

Giraldo²,

Tatiana³

2021

An. Documentación

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Los repositorios institucionales representan la denominada Vía Verde del movimiento Acceso Abierto, facilitando el acceso a la información y la gestión de la memoria científica de las universidades y centros de investigación. En ese sentido, no solo debe optimizarse su funcionamiento en términos de garantizar la organización y recuperación de los documentos sino también, los procesos de interoperabilidad y preservación digital. Es aquí donde el Open Archival Information System (OAIS) ha tomado lugar como el estándar que orienta y optimiza los procesos de cara a la preservación digital. A partir de lo anterior, este artículo da cuenta de los resultados de una investigación documental sobre el uso del modelo OAIS en repositorios institucionales, para ello se presenta la metodología de búsqueda desarrollada y el análisis de los factores a considerar en la gestión de los repositorios. Los resultados recopilan experiencias y categorías de implementación, principios básicos y esquemas de funcionamiento para atender condiciones de integralidad, interoperabilidad y facilidad en la recuperación y preservación de la memoria científica y académica de las instituciones. Principalmente se puede evidenciar una tendencia a modelos y arquitecturas distribuidas, mayor cantidad de experiencias en Europa y Estados Unidos y el uso de sistemas y software como DSpace, Lockss y Archivematica. The institutional repositories represent the so-called Greenway of the Open Access movement, facilitating access to information and the management of the scientific memory of universities and research centers. In this sense, its operation should not only be optimized in terms of guaranteeing the organization and retrieval of documents, but also optimizing the processes of interoperability and digital preservation. It is here where the Open Archival Information System (OAIS) has taken place as the standard that guides and optimizes processes for digital preservation. Based on the above, this article reports the results of documentary research on the use of the OAIS model in institutional repositories, for this purpose the developed search methodology and the analysis of the factors to be considered in the management of the repositories are presented. The results compile experiences and implementation categories, basic principles, and operating schemes to meet conditions of comprehensiveness, interoperability, and ease in the recovery and preservation of the scientific and academic memory of the institutions. Mainly a trend towards distributed models and architectures, a greater number of experiences in Europe and the United States and the use of systems and software such as DSpace, Lockss, and Archivematica can be evidenced.

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The Oxford Common File Layout: A Common Approach to Digital Preservation

Cited by 5 publications

References 1 publication

Structure-based knowledge acquisition from electronic lab notebooks for research data provenance documentation

Structure-based knowledge acquisition from electronic lab notebooks for research data provenance documentation

21st Century Technical Infrastructure for Digital Preservation

Experiencias de gestión de los procesos de preservación digital a partir del modelo OAIS en repositorios institucionales

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