BioCLIP 2.5 Huge Training Data Update (catalog & provenance)

#20
by netzhang - opened
HDR Imageomics Institute org
edited 15 days ago

This PR contains updates from the 240M_v1.1, updating:

  • catalog
  • provenance
  • dataset card
HDR Imageomics Institute org
edited 15 days ago by egrace479

Catalog Update

Replace previous catalog (213,937,319 rows; original used for BioCLIP 2 training) with latest catalog (233,055,986 rows), used for BioCLIP 2.5 Huge training.

HDR Imageomics Institute org

Provenance Update

Schema is preserved to stay consistent with the current provenance.

uuid, source_id, data_source, source_url, license_name, copyright_owner, license_link, title, bibliographicCitation 

Row-count assertion passed: matches catalog 233,055,986 exactly.

Construction

  • 211,152,120 rows preserved as-is from HF main snapshot (214M rows - 2.8M dropped UUIDs no longer in new catalog)
  • 21,903,866 net-new rows derived:
    • 21,901,107 gbif: license_link from per-HDF5 metadata, license_name via HF lookup -> CC URL regex -> "other" fallback, copyright_owner from occurrence.rightsHolder (fallback "not provided"), title = "not provided", bibliographicCitation from GBIF occurrence (else NULL)
    • 2,759 eol: license_name from eol per-HDF5 metadata, license_link via HF reverse-lookup, copyright_owner set to "not provided", title set to "not provided", bibliographicCitation = NULL

title and copyright_owner: 0 null everywhere, matching current provenance literal "not provided" convention.

Worth Noticing

title is 100% NULL "not provided" in the existing and new provenance...

egrace479 changed pull request title from 240M_v1.1 to BioCLIP 2.5 Huge Training Data Update
HDR Imageomics Institute org
edited 15 days ago

In a new PR, we will add the embeddings:

  • another copy of existing text embeddings, with species replaced with bioclip-2
  • the BioCLIP 2.5 Huge text embeddings with bioclip-2.5-vith14

In the end, we'll have embeddings/txt_emb_{model_name}.npy and embeddings/txt_emb_{model_name}.json for each model, as described here.

egrace479 changed pull request title from BioCLIP 2.5 Huge Training Data Update to BioCLIP 2.5 Huge Training Data Update (catalog & provenance)
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