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[WIP] Update BibTeX citation for CLIBD in project website#40

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[WIP] Update BibTeX citation for CLIBD in project website#40
gwtaylor with Copilot wants to merge 2 commits into
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copilot/update-bibtex-citation-clibd

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Copilot AI commented May 11, 2026

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  • Confirm current CLIBD BibTeX block in /docs/index.html is still the old arXiv citation
  • Confirm canonical ICLR citation in /README.md
  • Run baseline tests/lint/build for this area (pytest unavailable in environment)
  • Replace only the CLIBD BibTeX block in /docs/index.html with the ICLR 2025 @inproceedings citation
  • Run targeted validation to confirm year is 2025 and old arXiv fields are removed
  • Capture screenshot of updated docs page
  • Run final validation and create PR against main
Original prompt

Update the project website BibTeX citation in docs/index.html for repository bioscan-ml/clibd.

Context:

  • The website currently shows the old arXiv preprint citation for CLIBD under the "BibTeX for CLIBD" section.
  • The paper was published at ICLR 2025, and the root README.md already contains the correct conference citation.
  • The project page also already displays "ICLR 2025", so the BibTeX block should be consistent with that.

Required change:

  • Edit docs/index.html and replace the existing CLIBD BibTeX block:
    • remove the arXiv @article{gong2024clibd, ...} entry
    • replace it with the ICLR proceedings-style citation matching the repo README

Use this citation content:

@inproceedings{gong2025clibd,
    title={{CLIBD}: Bridging Vision and Genomics for Biodiversity Monitoring at Scale},
    author={Gong, ZeMing and Wang, Austin T. and Huo, Xiaoliang and Haurum, Joakim Bruslund and Lowe, Scott C. and Taylor, Graham W. and Chang, Angel X.},
    booktitle={The Thirteenth International Conference on Learning Representations},
    year={2025},
    url={https://openreview.net/forum?id=d5HUnyByAI},
}

Acceptance criteria:

  • Only the CLIBD BibTeX block in docs/index.html is updated.
  • The resulting HTML remains valid.
  • The citation uses year 2025.
  • The citation formatting remains readable inside the existing <pre> block.

Create a pull request against the main branch.

The following is the prior conversation context from the user's chat exploration (may be truncated):

User: ```
@INPROCEEDINGS{Gong2024-wh,
title = "{CLIBD}: Bridging Vision and Genomics for Biodiversity Monitoring
at Scale",
author = "Gong, Zeming and Wang, Austin and Huo, Xiaoliang and Haurum,
Joakim Bruslund and Lowe, Scott C and Taylor, Graham W and Chang,
Angel X",
booktitle = "The Thirteenth International Conference on Learning
Representations",
abstract = "Measuring biodiversity is crucial for understanding ecosystem
health. While prior works have developed machine learning models
for taxonomic classification of photographic images and DNA
separately, in this work, we introduce a multi-modal approach
combining both, using CLIP-style contrastive learning to align
images, barcode DNA, and text-based representations of taxonomic
labels in a unified embedding space. This allows for accurate
classification of both known and unknown insect species without
task-specific fine-tuning, leveraging contrastive learning for
the first time to fuse DNA and image data. Our method surpasses
previous single-modality approaches in accuracy by over 8% on
zero-shot learning tasks, showcasing its effectiveness in
biodiversity studies.",
month = "4~" # oct,
year = 2024,
url = "https://openreview.net/forum?id=d5HUnyByAI"
}

The citation given on the project page is the preprint version of the paper (on arXiv). But the paper was published at ICLR. README.md on root of repo is correct. This BibTeX should be updated to something like the attached.
Not sure about 2024 date here. Conference proceedings is 2025.

Assistant: Yes — `docs/index.html` should be updated to match the ICLR citation, and the year on the project page should be `2025`, not `2024`.

The repo already confirms the correct citation in `README.md`:

```bibtex name=README.md url=https://github.com/bioscan-ml/clibd/blob/363aae0ca145de6be72d9c4eaa1253ca14a63548/README.md#L224-L236
@inproceedings{gong2025clibd,
    title={{CLIBD}: Bridging Vision and Genomics for Biodiversity Monitoring at Scale},
    author={ZeMing Gong and Austin Wang and Xiaoliang Huo and Joakim Bruslund Haurum
        and Scott C. Lowe and Graham W. Taylor and Angel X Chang
    },
    booktitle={The Thirteenth International Conference on Learning Representations},
    year={2025},
    url={https://openreview.net/forum?id=d5HUnyByAI},
}

But the website still has the old arXiv preprint BibTeX here:

<section class="section" id="BibTeX">
  <div class="container is-max-desktop content">
    <h3 class="title">BibTeX for CLIBD</h3>
<pre>
@article{gong2024clibd,
    author={Gong, ZeMing and Wang, Austin T. and Huo, Xiaoliang and Haurum, Joakim Bruslund and Lowe, Scott C. and Taylor, Graham W. and Chang, Angel X.},
    title={{CLIBD}: Bridging Vision and Genomics for Biodiversity Monitoring at Scale},
    journal={arXiv preprint},
    year={2024},
    eprint={2405.17537},
    archivePrefix={arXiv},
    primaryClass={cs.AI},
    doi={10.48550/arxiv.2405.17537},
}
</pre>

Recommended replacement:

@inproceedings{gong2025clibd,
    title={{CLIBD}: Bridging Vision and Genom...

</details>



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*This pull request was created from Copilot chat.*
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LGTM

@gwtaylor
gwtaylor marked this pull request as ready for review May 11, 2026 19:20
@gwtaylor
gwtaylor requested a review from zmgong May 11, 2026 19:20
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2 participants