Methods and Tools Used for Preparation Scientific Articles Publications in HTML Format

Main Article Content

Abstract

Along with the traditional form of electronic presentation of full texts scientific articles – the PDF format, the HTML format has become increasingly widespread in recent years. It has a number of advantages for online publications due to the available means for better content structuring, adding multimedia and implementing of various interactive and dynamic features. In this regard, the task of getting an HTML version of a scientific article from the original format sent by the author becomes highly topical. The article discusses various approaches to preparing HTML versions of full texts scientific articles and describes the software used in this process. The main attention is paid to the tools used for source materials in the Word format.


The paper also outlines the basics of the JATS XML standard, which is widely used in the preparation of online publications of journal articles.

Article Details

References

1. Чебуков Д.Е. Об HTML версии полного текста научной статьи // Труды XX Всероссийской научной конференции «Научный сервис в сети Интернет», г. Новороссийск, 17–22 сентября 2018 г. М.: ИПМ им. М.В. Келдыша, 2018. С. 487–498. URL: https://keldysh.ru/abrau/2018/theses/16.pdf, https://doi.org/10.20948/abrau-2018-16.
2. Анимация и видео в научной публикации / М.М.Горбунов-Посадов [и др.] // Препринты ИПМ им. М.В. Келдыша. 2014. № 104. 32 с. URL: https://library.keldysh.ru/preprint.asp?id=2014-104.
3. Китаев Е.Л., Скорнякова Р.Ю. Скрейпинг «на лету» внешних веб-ресурсов, управляемый разметкой HTML-страницы // Препринты ИПМ им. М.В. Келдыша. 2019. № 20. 31 с. https://doi.org/10.20948/prepr-2019-20, URL: https://library.keldysh.ru/preprint.asp?id=2019-20.
4. Горбунов-Посадов М.М. Живая публикация // Открытые системы. 2011. № 4. С. 48–49. URL: https://keldysh.ru/gorbunov/live.htm.
5. Горбунов-Посадов М.М., Скорнякова Р.Ю. Обновляемая дата последней редакции в ссылке на живую публикацию // Препринты ИПМ им. М.В. Келдыша. 2017. № 82. 14 с. URL: https://library.keldysh.ru/preprint.asp?id=2017-82, https://doi.org/10.20948/prepr-2017-82.
6. Aalbersberg I.J. PDF versus HTML – which do researchers prefer? // Elsevier connect. 9 Jul 2013. URL: https://www.elsevier.com/connect/pdf-versus-html-which-do-researchers-prefer.
7. Kasdorf W.E. The XML revolution // Learned Publishing. 2001. Vol. 14, No. 3. P. 223–231. https://doi.org/10.1087/095315101750240485.
8. Young D., Madans P. XML: Why Bother? // Publishing Research Quarterly. 2009. No. 25. P. 147–153. https://doi.org/10.1007/s12109-009-9120-4.
9. Rech D.A. Instituting an XML-First Workflow // Publishing Research Quarterly. 2012. No. 28. P. 192–196. https://doi.org/10.1007/s12109-012-9278-z.
10. Kasdorf W.E. The Columbia Guide to Digital Publishing. NYC: Columbia University Press, 2003. 816 p.
11. Murray-Rust P., Rzepa H.S. Scientific publications in XML – towards a global knowledge base // Data Science. 2002. No. 1. P. 84–98. https://doi.org/10.2481/dsj.1.84.
12. Standardized Markup for Journal Articles: Journal Article Tag Suite (JATS) // NISO website, 07.07.2021. URL: https://www.niso.org/standards-committees/jats.
13. Lapeyre D.A. Introduction to JATS (Journal Article Tag Suite) // XML.com. 12.10.2018. URL: https://www.xml.com/articles/2018/10/12/introduction-jats/.
14. Usdin B.T., Lapeyre D.A. JATS/BITS/NISO STS // Proceedings of the Symposium on Markup Vocabulary Ecosystems. Balisage Series on Markup Technologies, vol. 22 (2018), Washington, DC, USA, 30.07.2018. https://doi.org/10.4242/BalisageVol22.Usdin01.
15. Beck J. NISO Z39.96 The Journal Article Tag Suite (JATS): What Happened to the NLM DTDs? // The Journal of Electronic Publishing. 2011. Vol. 14, issue 1. https://doi.org/10.3998/3336451.0014.106.
16. Donohoe P., Sherman J., Mistry A. The Long Road to JATS // Proceedings of Journal Article Tag Suite Conference (JATS-Con), Bethesda (MD), USA, April 21–22, 2015. URL: https://www.ncbi.nlm.nih.gov/books/NBK279831/.
17. Гафурова П.О., Елизаров А.М., Липачёв Е.К. Базовые сервисы фабрики метаданных цифровой математической библиотеки Lobachevskii-DML // Электронные библиотеки. 2020. Т. 23. № 3. С. 336–381. https://doi.org/10.26907/1562-5419-2020-23-3-336-381.
18. Lizzi V. Improving JATS for multilingual articles // Proceedings of Journal Article Tag Suite Conference (JATS-Con), Bethesda (MD), USA, May 3–4, 2022. URL: https://www.ncbi.nlm.nih.gov/books/NBK579699/.
19. Journal Archiving and Interchange Tag Library NISO JATS Version 1.3 // National Center for Biotechnology Information. URL: https://jats.nlm.nih.gov/archiving/tag-library/1.3/chapter/set-intro.html.
20. Journal Publishing Tag Library NISO JATS Version 1.3 // National Center for Biotechnology Information. URL: https://jats.nlm.nih.gov/publishing/tag-library/1.3/chapter/journal-tag-set-intro.html.
21. Article Authoring Tag Library NISO JATS Version 1.3 // National Center for Biotechnology Information. URL: https://jats.nlm.nih.gov/articleauthoring/tag-library/1.3/chapter/set-intro.html.
22. Journal Article Tag Suite // National Center for Biotechnology Information URL: https://jats.nlm.nih.gov/.
23. JATS4R (JATS for Reuse). Официальный сайт. URL: https://jats4r.org/.
24. Kasdorf W.E. Getting from Word to JATS XML // The Association of Learned and Professional Society Publishers blog. 18.10.2018. URL: https://blog.alpsp.org/2018/10/getting-from-word-to-jats-xml.html.
25. Adam L.R., Perera C. eXtyles, Typefi, and the NLM Journal Publishing DTD // Proceedings of Journal Article Tag Suite Conference (JATS-Con), Bethesda (MD), USA, November 1–2, 2010. URL: https://www.ncbi.nlm.nih.gov/books/NBK47080/.
26. Piez W. HTML First?: Testing an alternative approach to producing JATS from arbitrary (unconstrained or "wild") .docx (WordML) format // Proceedings of Journal Article Tag Suite Conference (JATS-Con), Bethesda (MD), USA, April 25–26, 2017. URL: https://www.ncbi.nlm.nih.gov/books/NBK425546/.
27. Oxygen XML Editor. URL: https://www.oxygenxml.com/.
28. Fonto Editor. URL: https://www.fontoxml.com/.
29. LiXuid Manuscript. URL: https://www.ariessys.com/blog/introduction-lixuid-manuscript-xml/.
30. XEditor. URL: https://www.xpublisher.com/products/xeditor.
31. Texture JATS XML editor. URL: https://github.com/substance/texture.
32. Garnett A., Aufreiter M., Buchtala O., Alperin J. P. Introducing Texture: An Open Source WYSIWYG Javascript Editor for JATS // Proceedings of Journal Article Tag Suite Conference (JATS-Con), Bethesda (MD), USA, April 25–26, 2017. URL: https://www.ncbi.nlm.nih.gov/books/NBK425544/.
33. Libero Editor. URL: https://gitlab.coko.foundation/libero/editor.
34. PMC XML Validator // National Center for Biotechnology Information. URL: https://www.ncbi.nlm.nih.gov/pmc/tools/xmlchecker/.
35. JATS4R Validator // JATS4R, NISO Working Group. URL: https://validator.jats4r.org/.
36. PMC Style Checker // National Center for Biotechnology Information. URL: https://www.ncbi.nlm.nih.gov/pmc/tools/stylechecker/.
37. ScienceCentral Style Checker // The Korean Federation of Science and Technology Societies. URL: https://www.e-sciencecentral.org/tools/stylechecker/.
38. JATS Preview Stylesheets // GitHub.com. URL: https://github.com/ncbi/JATSPreviewStylesheets.
39. Piez W. Fitting the Journal Publishing 3.0 Preview Stylesheets to Your Needs: Capabilities and Customizations // Proceedings of Journal Article Tag Suite Conference (JATS-Con), Bethesda (MD), USA, November 1–2, 2010. URL: https://www.ncbi.nlm.nih.gov/books/NBK47104/.
40. Graham T. Formatting JATS: as easy as 1-2-3 // Proceedings of Journal Article Tag Suite Conference (JATS-Con), Bethesda (MD), USA, April 1–2, 2014. URL: https://www.ncbi.nlm.nih.gov/books/NBK189779/.
41. PeerJ/jats-conversion: Conversion and validation for JATS XML // GitHub.com URL: https://github.com/PeerJ/jats-conversion.
42. Seeing through the eLife Lens: A new way to view research // Inside eLife, Jun 6, 2013. URL: https://elifesciences.org/inside-elife/0414db99/seeing-through-the-elife-lens-a-new-way-to-view-research.
43. Lens // GitHub.com URL: https://github.com/elifesciences/lens.
44. Inera JATS Solutions. URL: https://www.inera.com/jats-solutions/.
45. Inera eXtyles Arc. URL: https://www.inera.com/extyles-arc/.
46. Typefi: Automated publishing for print, online, and mobile. URL: https://www.typefi.com/products-services/.
47. Q&A: End-to-end automation with eXtyles Arc and Typefi. URL: https://www.typefi.com/qa-end-to-end-automation-with-extyles-arc-and-typefi/.
48. Eve M.P. The Means of (Re-)Production: Expertise, Open Tools, Standards and Communication // Publications. 2014. No. 2. P. 38–43. https://doi.org/10.3390/publications2010038.
49. Ictect Intelligent Content for Journals. URL: https://www.ictect.com/JATS-XML.
50. SciSpace JATS XML Converter. URL: https://typeset.io/for-publishers/jats-xml/.
51. Pandoc. URL: https://pandoc.org/.
52. Transpect. An Open Source framework for converting and checking data. URL: https://transpect.github.io/.
53. Ахметов Д.Ю., Елизаров А.М., Липачёв Е.К. Сервис-ориентированная информационная система научного журнала «Электронные библиотеки» // Электронные библиотеки. 2016. Т. 19, № 1. С. 2–39. URL: https://rdl-journal.ru/article/view/377/468.
54. Галявиева М.С., Елизаров А.М., Липачёв Е.К. Цифровая инфраструктура электронного научного журнала: автоматизация редакционно-издательских процессов и система сервисов // Электронные библиотеки. 2016. Т. 19, № 5. С. 408–465. URL: https://rdl-journal.ru/article/view/404/489.
55. meTypeset. URL: https://github.com/withanage/meTypeset.
56. Garnett A., Alperin J.P., Willinsky J. The Public Knowledge Project XML Publishing Service and meTypeset: Don't call it "Yet Another Word-to-JATS Conversion Kit" // Journal Article Tag Suite Conference (JATS-Con) Proceedings 2015 [Internet]. Bethesda (MD): National Center for Biotechnology Information (US); 2015. URL: https://www.ncbi.nlm.nih.gov/books/NBK279666/.
57. DocxToJats. URL: https://github.com/Vitaliy-1/docxToJats.
58. Ekanger A., Odu O. How we tried to JATS XML // Ravnetrykk. 2020. No. 39. P. 156–162. https://doi.org/10.7557/15.5517.
59. 13 Best Free Word to HTML Converter Software for Windows. URL: https://listoffreeware.com/free-word-to-html-converter-software-windows/.
60. XMLmind Word To XML: Convert DOCX to unstyled, valid, “semantic” XHTML 1.0, 1.1 or 5.0. URL: https://xmlmind.com/w2x/docx_to_xhtml.html.
61. Doc Converter Pro. URL: https://docconverter.pro/.
62. XSweet. URL: https://xsweet.org/.
63. Open XML PowerTools. URL: https://github.com/OpenXmlDev/Open-Xml-PowerTools/.
64. Opensagres XDocReport. URL: https://github.com/opensagres/xdocreport.
65. Mammoth. URL: https://mike.zwobble.org/projects/mammoth/.
66. Siegman T., Young B. HTML-First at Wiley // BookNet Canada blog. 14.02.2018. URL: https://www.booknetcanada.ca/blog/2018/2/14/html-first-at-wiley.
67. Research Articles in Simplified HTML: a Web-first format for HTML-based scholarly articles / Peroni, Silvio [at al.] // PeerJ Computer Science. 2017. No. 3. Article no. e132. https://doi.org/10.7717/peerj-cs.132.
68. PubCSS. URL: https://github.com/thomaspark/pubcss.
69. dokieli. URL: https://dokie.li/.
70. Capadisli S., Guy A., Verborgh R., Lange C., Auer S., Berners-Lee T. Decentralised authoring, annotations and notifications for a read-write web with dokieli // Proceedings of the 17th international conference on web engineering. Cham. 2017. Springer. P. 469–481. https://doi.org/10.1007/978-3-319-60131-1_33.
71. RASH Framework. URL: https://rash-framework.github.io/
72. Spinaci G., Peroni S., Di Iorio A., Poggi F., Vitali F. The RASH JavaScript Editor (RAJE): A Wordprocessor for Writing Web-first Scholarly Articles // Proceedings of the 2017 ACM Symposium on Document Engineering. 2017 (DocEng 2017). P. 85–94. https://doi.org/10.1145/3103010.3103018