Shows an example of processing textual citations (as contained in UT Austin's "publications database" or on CVs) into structured metadata.
Uses the Grobid system, documented here: https://grobid.readthedocs.io/en/latest/Grobid-service/#apiprocesscitationlist
First run docker image of Grobid:
docker run --rm --init --ulimit core=0 -p 8070:8070 lfoppiano/grobid:0.8.0
Then the process_citations.py script accesses that docker image. I ran this python code from another docker image (using repo2docker); if you are running python locally then you'll need to change the URL from host.docker.internal to localhost.
$ python process_citations.py plain_text_citations.txt
Demonstration script reads the plain text citations from a text file, then splits it on double newline, passing three text chunks to Grobid. It requests results in the bibtex format.
This turns this:
Moon, E., & Howison, J. (2024). A dynamic perspective on software modularity in open source software (OSS) development: A configurational approach. Information and Organization, 34(1), 100499. https://doi.org/10.1016/j.infoandorg.2023.100499
Du, C., Cohoon, J., Lopez, P., & Howison, J. (2022). Understanding progress in software citation: A study of software citation in the CORD-19 corpus. PeerJ Computer Science, 8, e1022. https://doi.org/10.7717/peerj-cs.1022
Howison, J., & Bullard, J. (2015). Software in the scientific literature: Problems with seeing, finding, and using software mentioned in the biology literature. Journal of the Association for Information Science and Technology (JASIST), Article first published online: 13 May 2015. DOI: 10.1002/asi.23538 19 Pages/8625 words.
into
@article{0,
author = {Moon, E and Howison, J},
title = {A dynamic perspective on software modularity in open source software (OSS) development: A configurational approach},
journal = {Information and Organization},
date = {2024},
year = {2024},
pages = {100499},
volume = {34},
number = {1},
doi = {10.1016/j.infoandorg.2023.100499}
}
@article{1,
author = {Du, C and Cohoon, J and Lopez, P and Howison, J},
title = {Understanding progress in software citation: A study of software citation in the CORD-19 corpus},
journal = {PeerJ Computer Science},
date = {2022},
year = {2022},
pages = {8--e1022},
doi = {10.7717/peerj-cs.1022}
}
@article{2,
author = {Howison, J and Bullard, J},
title = {Software in the scientific literature: Problems with seeing, finding, and using software mentioned in the biology literature},
journal = {Journal of the Association for Information Science and Technology},
date = {2015-05},
year = {2015},
month = {5},
number = {13},
doi = {10.1002/asi.2353819Pages/8625words}
}