Category: Open Source Software

"Finding the Right Platform: A Crosswalk of Academy-Owned and Open-Source Digital Publishing Platforms"


A key responsibility for many library publishers is to collaborate with authors to determine the best mechanisms for sharing and publishing research. Librarians are often asked to assist with a wide range of research outputs and publication types, including eBooks, digital humanities (DH) projects, scholarly journals, archival and thematic collections, and community projects. These projects can exist on a variety of platforms both for profit and academy owned. Additionally, over the past decade, more and more academy owned platforms have been created to support both library publishing programs. Library publishers who wish to emphasize open access and open-source publishing can feel overwhelmed by the proliferation of available academy-owned or -affiliated publishing platforms. For many of these platforms, documentation exists but can be difficult to locate and interpret. While experienced users can usually find and evaluate the available resources for a particular platform, this kind of documentation is often less useful to authors and librarians who are just starting a new publishing project and want to determine if a given platform will work for them. Because of the challenges involved in identifying and evaluating the various platforms, we created this comparative crosswalk to help library publishers (and potentially authors) determine which platforms are right for their services and authors’ needs.

https://hcommons.org/deposits/item/hc:59231/

| Research Data Curation and Management Works |
| Digital Curation and Digital Preservation Works |
| Open Access Works |
| Digital Scholarship |

Digital Scholarship Has Released the Artificial Intelligence and Libraries Bibliography

The Artificial Intelligence and Libraries Bibliography includes over 125 selected English-language articles and books that are useful in understanding how libraries are exploring and adopting modern artificial intelligence (AI) technologies. It covers works from January 2018 through August 2023. It includes a Google Translate link. The bibliography is available as a website and a website PDF with live links.

Libraries have been exploring AI technology for a long time. In particular, there was an active period of experimentation from the mid-1980s through the mid-1990s that primarily focused on the use of expert systems. Many projects used expert system shells, which simplified development; however, some projects also used AI languages, such as Prolog. This period produced a significant number of library-related AI papers.

Subsequently, library interest in AI diminished until around 2018, when research activity increased.

The public release of generative AI systems in late 2022, such as ChatGPT, sparked a strong upsurge of interest in them and a rush to utilize their capabilities. Since these systems are relatively easy to use, this development may result in a significant new wave of library-oriented AI activity.

https://digital-scholarship.org/ai/ai-libraries.htm

| Research Data Curation and Management Works |
| Digital Curation and Digital Preservation Works |
| Open Access Works |
| Digital Scholarship |

"Creating a Full Multitenant Back End User Experience in Omeka S with the Teams Module"


When Omeka S appeared as a beta release in 2016, it offered the opportunity for researchers or larger organizations to publish multiple Omeka sites from the same installation. Multisite functionality was and continues to be a major advance for what had become the premiere platform for scholarly digital exhibits produced by libraries, museums, researchers, and students. However, while geared to larger institutional contexts, Omeka S poses some user experience challenges on the back end for larger organizations with numerous users creating different sites. These challenges include a "cluttered" effect for many users seeing resources they do not need to access and data integrity challenges due to the possibility of users editing resources that other users need in their current state. The University of Illinois Library, drawing on two local use cases as well as two additional external use cases, developed the Teams module to address these challenges. This article describes the needs leading to the decision to create the module, the project requirement gathering process, and the implementation and ongoing development of Teams. The module and findings are likely to be of interest to other institutions adopting Omeka S but also, more generally, to libraries seeking to contribute successfully to larger open-source initiatives.

https://journal.code4lib.org/articles/17389

| Research Data Curation and Management Works |
| Digital Curation and Digital Preservation Works |
| Open Access Works |
| Digital Scholarship |

"A Very Small Pond: Discovery Systems That Can Be Used with FOLIO in Academic Libraries"


FOLIO, an open source library services platform, does not have a front end patron interface for searching and using library materials. Any library installing FOLIO will need at least one other software to perform those functions. This article evaluates which systems, in a limited marketplace, are available for academic libraries to use with FOLIO.

https://journal.code4lib.org/articles/17433

| Research Data Curation and Management Works |
| Digital Curation and Digital Preservation Works |
| Open Access Works |
| Digital Scholarship |

"Introducing the Open Resource Sharing Coalition (OpenRS)"


The Open Library Foundation (OLF) is introducing the Open Resource Sharing Coalition (OpenRS), a resource sharing initiative created in partnership with library consortia, open source developers, and vendors. OpenRS is a heterogeneous resource sharing system that is ILS and Discovery agnostic and accommodates the full spectrum of mediated and unmediated resource sharing.

OpenRS acts upon a "consortia first" mentality, striving to provide libraries with the tools needed for robust and extended functionality for resource sharing. The project will focus on developing and implementing software systems, protocols, and best practices that foster collaboration and support various library services, including seamless unmediated intra-consortial borrowing functionality and expanded sharing across multiple consortia. The software will provide a containerized code base configured for ease of deployment, maintenance, and upgrades. Libraries and consortia can choose to host the service locally or with a third party. . . .

While yet to be an official project, OLF is expected to approve the OpenRS charter by the end of August. An official web presence will be added to the OLF site soon. Core OpenRS functionality for direct consortial borrowing will be rolled out as part of the MOBIUS release in May 2024. Additional features and functionality will be determined based on coalition feedback and implemented over the coming months and years.

https://tinyurl.com/5n8b2yxx

| Research Data Curation and Management Works |
| Digital Curation and Digital Preservation Works |
| Open Access Works |
| Digital Scholarship |

"The Future of Open Source Is Still Very Much in Flux"


Today, 96% of all code bases incorporate open-source software. GitHub, the biggest platform for the open-source community, is used by more than 100 million developers worldwide. The Biden administration’s Securing Open Source Software Act of 2022 publicly recognized open-source software as critical economic and security infrastructure. Even AWS, Amazon’s money-making cloud arm, supports the development and maintenance of open-source software; it committed its portfolio of patents to an open use community in December of last year. Over the last two years, while public trust in private technology companies has plummeted, organizations including Google, Spotify, the Ford Foundation, Bloomberg, and NASA have established new funding for open-source projects and their counterparts in open science efforts—an extension of the same values applied to scientific research.

https://tinyurl.com/4ksns2ha

| Research Data Publication and Citation Bibliography | Research Data Sharing and Reuse Bibliography | Research Data Curation and Management Bibliography | Digital Scholarship |

"What Those Responsible for Open Infrastructure in Scholarly Communication Can Do about Possibly Predatory Practices"


This chapter presents a three-phase analysis of the 521 journals that use the open source publishing platform Open Journal Systems (OJS) while appearing on Beall’s list of predatory publishers and journals and/or in Cabells Predatory Reports, both of which purport to identify journals that charge authors article processing fees (APC) to publish in the pretense of a peer-reviewed journal. . . . The first phase involved the researchers reaching out to publishers and editors on Beall’s list using OJS; the second phase involves determining the extent to which journals using OJS appeared on the two predatory lists, and the third reports on a new system, involving trade organizations, such ORCID and Crossref, for authenticating journal practices.

https://tinyurl.com/2xwb94ue

| Research Data Curation and Management Works |
| Digital Curation and Digital Preservation Works |
| Open Access Works |
| Digital Scholarship |

"2023 Library Systems Report: The Advance of Open Systems"


Interest in open systems has been growing within the library world for at least 15 years, and recent procurements reflect important breakthroughs. The selection of the open source library services platform (LSP) FOLIO by Library of Congress (LC), the MOBIUS consortium, the National Library of Australia, and others has solidified FOLIO’s position as a major competitor in the market. . . .

Most libraries still use proprietary software for their core systems. In the US, about 10% of academic libraries and 17% of public libraries use an open source integrated library system (ILS). But the barriers to these products—real and perceived—have largely collapsed. Functionality gaps have narrowed across major open source products like Koha, Evergreen, and now FOLIO, after long periods of development.

https://bit.ly/3nh8Tdl

| Research Data Curation and Management Works |
| Digital Curation and Digital Preservation Works |
| Open Access Works |
| Digital Scholarship |

With Open Source Software: "How to Build a Publishers’ Catalogue"


As a consortium of six open access presses, ScholarLed had a use case for a publishers’ catalogue that would present all their recent book publications in one catalogue. . . . Fortunately all the presses have included the metadata for their monograph publications in Thoth, the open metadata management and dissemination platform that has been produced as another COPIM [Community-led Open Publication Infrastructures for Monographs] output. This made it possible to easily conceive of a catalogue published as both a website and a PDF that pulls in and arranges the bibliographic metadata automatically and that can be updated on a regular basis without manual intervention. . . .

Our computational publishing model and workflow allowed us to put together this catalogue prototype very easily using only a few pieces of readily-available open source software: Quarto, Jupyter Notebook, and Git. This provided us an instant framework for web publication that didn’t require editing any HTML or CSS. . . .

Our ScholarLed publishers’ catalogue offers a working prototype of an automatically-updated book that retrieves the data for its content directly from an API. It does so with readily available open source software that can be installed with relative ease by anyone who wants to use this model to create a publication with computational elements.

http://bit.ly/3m1exzz

| Research Data Curation and Management Works |
| Digital Curation and Digital Preservation Works |
| Open Access Works |
| Digital Scholarship |

Only 10% Fully Understand "Preprint": "Framing COVID-19 Preprint Research as Uncertain: A Mixed-Method Study of Public Reactions"


Unlike hedging, preprint disclosure had no impact on audience message evaluations, nor vaccine attitudes and intentions. In one sense, this is a positive finding in that transparency about preprint status is unlikely to produce negative public reactions. Yet a likely explanation for the null effects is that most participants lacked the knowledge to differentiate between preprints and peer-reviewed research and did not understand this disclosure as an indicator of preliminary science. The qualitative data supported this explanation. When asked how they interpret the term "preprint" when they see it in a scientific news article, participants’ responses indicated that most had a limited understanding of the concept, even among those who received the preprint disclosure message with a brief explanation of the term. In total, only 10% of participants provided definitions of preprint that aligned with those accepted by the scholarly community. Only 15% described the term as an indicator of uncertain or preliminary evidence.

https://doi.org/10.1080/10410236.2023.2164954

| Research Data Curation and Management Works |
| Digital Curation and Digital Preservation Works |
| Open Access Works |
| Digital Scholarship |

"Guest Post — Scholarly Publishing as a Global Endeavor: Leveraging Open Source Software for Bibliodiversity "


The headline numbers for OJS [Open Journal Systems] in 2021 indicate that 1.46m articles were published by 34,071 active journals on approximately 12,000 publisher and institutional installations. To give context to these numbers, Elsevier’s portfolio published ~600,000 articles in ~2,700 journals in the same year. These past few years have seen a significant acceleration in the proliferation of the number of journals and the number of articles published on open source software.

bit.ly/3XAvduC

| Research Data Publication and Citation Bibliography | Research Data Sharing and Reuse Bibliography | Research Data Curation and Management Bibliography | Digital Scholarship |

"Beyond Web of Science and Scopus There Is Already an Open Bibliodiverse World of Research — We Ignore It at Our Peril"


Discussing their analysis of a new dataset of journals published via the Open Journals Systems publishing platform, Saurabh Khanna, Jon Ball, Juan Pablo Alperin and John Willinsky argue that rather than being an aspiration an open, regional and bibliodiverse publishing ecosystem is already in existence.

bit.ly/3XlXK6J

| Research Data Publication and Citation Bibliography | Research Data Sharing and Reuse Bibliography | Research Data Curation and Management Bibliography | Digital Scholarship |

"FOSS Could Be an Unintended Victim of EU Crusade to Make Software More Secure"


But FOSS is in the most danger. The underlying assumption of the regulation is that cybersecurity exists in the digital market like fire resistance does in that for soft furnishings. Putting regulatory cost burdens on a part of the market with no revenue and no gatekeeping on its distribution channels cannot work; there are no prices to increase to absorb compliance costs and no tap to turn off to keep the stuff off the market.

bit.ly/40RBepA

| Research Data Publication and Citation Bibliography | Research Data Sharing and Reuse Bibliography | Research Data Curation and Management Bibliography | Digital Scholarship |

"Designing Digital Discovery and Access Systems for Archival Description"


Archival description is often misunderstood by librarians, administrators, and technologists in ways that have seriously hindered the development of access and discovery systems. It is not widely understood that there is currently no off-the-shelf system that provides discovery and access to digital materials using archival methods. This article is an overview of the core differences between archival and bibliographic description, and discusses how to design access systems for born-digital and digitized materials using the affordances of archival metadata. It offers a custom indexer as a working example that adds the full text of digital content to an Arclight instance and argues that the extensibility of archival description makes it a perfect match for automated description. Finally, it argues that building archives-first discovery systems allows us to use our descriptive labor more thoughtfully, better enable digitization on demand, and overall make a larger volume of cultural heritage materials available online.

bit.ly/3DhKmcC

| Research Data Publication and Citation Bibliography | Research Data Sharing and Reuse Bibliography | Research Data Curation and Management Bibliography | Digital Scholarship |

"European Commission Grants Substantial Funding to Improve Institutional Publishing for Science"


The project "Creating a Robust Accessible Federated Technology for Open Access (CRAFT-OA), carried out by 23 experienced partners from 14 European countries, coordinated by the University of Gättingen, Germany will start in January 2023 and run for 36 months. . . . The project focuses on four strands of action to improve the Diamond OA model: (1) Provide technical improvements for journal platforms and journal software (2) Build communities of practice to foster overall infrastructure improvement (3) Increase visibility, discoverability and recognition for Diamond OA publishing (4) Integrate Diamond OA publishing with the European Open Science Cloud (EOSC) and other large-scale data aggregators.

https://operas.hypotheses.org/6016

| Research Data Publication and Citation Bibliography | Research Data Sharing and Reuse Bibliography | Research Data Curation and Management Bibliography | Digital Scholarship |

"Recalibrating the Scope of Scholarly Publishing: A Modest Step in a Vast Decolonization Process"


By analyzing 25,671 journals largely absent from common journal counts, as well as Web of Science and Scopus, this study demonstrates that scholarly communication is more of a global endeavor than is commonly credited. These journals, employing the open source publishing platform Open Journal Systems (OJS), have published 5.8 million items; they are in 136 countries, with 79.9% in the Global South and 84.2% following the OA diamond model (charging neither reader nor author). A substantial proportion of journals operate in more than one language (48.3%), with research published in a total of 60 languages (led by English, Indonesian, Spanish, and Portuguese). The journals are distributed across the social sciences (45.9%), STEM (40.3%), and the humanities (13.8%). For all their geographic, linguistic, and disciplinary diversity, 1.2% are indexed in the Web of Science and 5.7% in Scopus. On the other hand, 1.0% are found in Cabells Predatory Reports, while 1.4% show up in Beall’s questionable list. This paper seeks to both contribute and historically situate expanded scale and diversity of scholarly publishing in the hope that this recognition may assist humankind in taking full advantage of what is increasingly a global research enterprise.

https://doi.org/10.1162/qss_a_00228

| Research Data Publication and Citation Bibliography | Research Data Sharing and Reuse Bibliography | Research Data Curation and Management Bibliography | Digital Scholarship |

"Why We Need Open-Source Science Innovation — Not Patents and Paywalls"


The results of a survey study of university professors in Canada found 81.1 percent of Canadian faculty would trade all IP for an open-source endowed chair and 34.4 percent of these faculty would require no additional compensation. Surprisingly, even more American faculty (86.7 percent) are willing to accept an open-source endowed professorship.

https://cutt.ly/x190Hso

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"A Guide to Potential Liability Pitfalls for People Running a Mastodon Instance"


The absolute safest thing to do, to shield your own personal assets, is register a LLC (limited liability company), get a separate bank account in the name of the LLC, transfer any assets and liabilities (donations you receive / bills you pay) to the LLC, and get insurance in the name of the LLC. This is obviously complete overkill for anyone who’s running a really small server, especially because the annual fees for LLC registration are likely to exceed whatever amount your users chip in, but if you’re running an open-registration server or you exceed 20-30k users, or you have a lot of personal assets, you should think hard about it and talk to a lawyer.

https://cutt.ly/iM2aXNd

| Research Data Publication and Citation Bibliography | Research Data Sharing and Reuse Bibliography | Research Data Curation and Management Bibliography | Digital Scholarship |

Open Source "Academic Tracker: Software for Tracking and Reporting Publications Associated with Authors and Grants"


In recent years, United States federal funding agencies, including the National Institutes of Health (NIH) and the National Science Foundation (NSF), have implemented public access policies to make research supported by funding from these federal agencies freely available to the public. Enforcement is primarily through annual and final reports submitted to these funding agencies, where all peer-reviewed publications must be registered through the appropriate mechanism as required by the specific federal funding agency. Unreported and/or incorrectly reported papers can result in delayed acceptance of annual and final reports and even funding delays for current and new research grants. So, it’s important to make sure every peer-reviewed publication is reported properly and in a timely manner. For large collaborative research efforts, the tracking and proper registration of peer-reviewed publications along with generation of accurate annual and final reports can create a large administrative burden. With large collaborative teams, it is easy for these administrative tasks to be overlooked, forgotten, or lost in the shuffle. In order to help with this reporting burden, we have developed the Academic Tracker software package, implemented in the Python 3 programming language and supporting Linux, Windows, and Mac operating systems. Academic Tracker helps with publication tracking and reporting by comprehensively searching major peer-reviewed publication tracking web portals, including PubMed, Crossref, ORCID, and Google Scholar, given a list of authors. Academic Tracker provides highly customizable reporting templates so information about the resulting publications is easily transformed into appropriate formats for tracking and reporting purposes. The source code and extensive documentation is hosted on GitHub (https://moseleybioinformaticslab.github.io/academic_tracker/) and is also available on the Python Package Index (https://pypi.org/project/academic_tracker) for easy installation.

https://doi.org/10.1371/journal.pone.0277834

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"Who Writes Scholarly Code?"


This paper presents original research about the behaviours, histories, demographics, and motivations of scholars who code, specifically how they interact with version control systems locally and on the Web. By understanding patrons through multiple lenses—daily productivity habits, motivations, and scholarly needs—librarians and archivists can tailor services for software management, curation, and long-term reuse, raising the possibility for long-term reproducibility of a multitude of scholarship.

http://www.ijdc.net/article/view/839

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"Introducing the FAIR Principles for Research Software"


The FAIR for Research Software (FAIR4RS) Working Group has adapted the FAIR Guiding Principles to create the FAIR Principles for Research Software (FAIR4RS Principles). The contents and context of the FAIR4RS Principles are summarised here to provide the basis for discussion of their adoption. Examples of implementation by organisations are provided to share information on how to maximise the value of research outputs, and to encourage others to amplify the importance and impact of this work.

https://doi.org/10.1038/s41597-022-01710-x

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