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ID_Extractor (ID_Ex) for extracting IDs and references from .jats article files

Authors: Baumeister, Peter;

ID_Extractor (ID_Ex) for extracting IDs and references from .jats article files

Abstract

Introductory remarks Several scientific journals edited by the German Archaeological Institute use jats xml to be displayed in an instance of the eLife Lens 2.0.0 (for example Archäologischer Anzeiger, see: https://publications.dainst.org/journals/aa). The articles are enhanced with bibliographic and geographic authority data as well as other references to specific information resources of the institute´s information infrastructure. Approach ID_Ex browses the .xml files stored in the article repository folder and extracts the pre-defined references. The results are stored in separate sqlite3 tables reflecting the relation of a specific record to the doi of the article, e. g. from bibliographic records (zenon-IDs, see https://zenon.dainst.org/), geographic authority data (gazetteer-IDs, see https://gazetteer.dainst.org/), or records of other entities like objects (iDAI.objects-IDs, see https://arachne.dainst.org/) or records from archaeological fieldwork documentation systems (iDAI.field-IDs, see https://field.idai.world/). ID_Ex is based on Python 3.12.0 using bs4 from BeautifulSoup library, so it can be easily modified for own purposes. Mode of operation - and things to be done If not existing, ID_Ex generates the required sqlite3 tables in a subfolder ("db_folder") when starting the tool for the first time. In the initial version of ID_Ex you have to enter the path to the repository folder in which the .jats files are stored manually. ID_Ex extracts the data and saves them in mentioned sqlite3 tables. To avoid duplicates ID_Ex checks if an article is already recorded using the doi and skipps in this case further actions. Additionally ID_Ex generates a detailed .txt log file containing the file names and the IDs extracted from them in a subfolder ("_ID_Ex_LOG"). With minor modifications ID_Ex can be run at certain intervalls (using a CronJob for example) to keep the corpus up to date automatically. New in v.1.2.0 Added a GUI to use the application more comfortably Improved log-handling for multiple runs Tables merged to one single database ("ID_Ex_database.db"). New in v1.1.0: A menue allows to export the records of a selected table into a .txt file in the log subfolder, not only after the extraction process but also in form of a request to a previous generated database Improved handling of the parameters needed for sqlite3 operations using a dict that contains all necessary informations to minimize repetitions To be done: Enable automatical scraping of scattered repositories containing .jats article files. Adding step by step features to export the records as .json files or in other formats. Enable ID_Ex to handle more complex queries and requests Implement a mode of running autonomously to make ID_Ex usable within a CronJob Improvements of the GUI, especially exception handling Technical remarks Python 3.12.0 bs4 from BeautifulSoup sqlite3 Tested for Windows (not for Linux yet) See also In this context see following repositories for preparing the .jats files of the journals mentioned above: TagTool_WiZArD application (ttw), see https://github.com/pBxr/TagTool_WiZArd Web Extension for TagTool_WiZArD application (ttw_webx), see https://github.com/pBxr/ttw_WebExtension

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selected citations
These citations are derived from selected sources.
This is an alternative to the "Influence" indicator, which also reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Citations provided by BIP!
popularity
This indicator reflects the "current" impact/attention (the "hype") of an article in the research community at large, based on the underlying citation network.
BIP!Popularity provided by BIP!
influence
This indicator reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Influence provided by BIP!
impulse
This indicator reflects the initial momentum of an article directly after its publication, based on the underlying citation network.
BIP!Impulse provided by BIP!
0
Average
Average
Average