🍱 New organisms of Protein: uniprot, 2026-01

[ishitajain9717]

Note: For an existing instance, please first run bt.core.sync_public_sources() to sync new sources!

Added support for the following organisms in Protein via bionty-assets:

• "Rattus norvegicus"
• "Canis lupus"
• "Macaca fascicularis"
• "Sus scrofa"
• "Cricetulus griseus"
• "Escherichia coli"
• "Arabidopsis thaliana"
• "Saccharomyces cerevisiae"
• "Bos taurus"

Curated in transform: https://lamin.ai/laminlabs/bionty-assets/transform/Y0jzryYsJOeX0001

Changes in the python package:

• Allow passing the scientific name of an organism (due to the ambiguity of common names from different sources)
• source.name must match the organism keys in sources.yaml, be it common name or scientific name
• always use lower case in organism keys in sources.yaml

Addresses:

• Update bionty.Protein sources #368

[sunnyosun]

@ishitajain9717 The current version is 2026-01, see https://www.uniprot.org/

[sunnyosun]

Also please note there's - not _ in the versions.

[sunnyosun]

Reviewing this transform https://lamin.ai/laminlabs/bionty-assets/transform/Y0jzryYsJOeX0001:

1. There are some duplications in the output artifacts, you added 8 organisms, which should correspond to 8 output artifacts, but there are 26 here. This seems to come from soft deletion of the previous transforms and artifacts:
   
   
   
2. The version should be 2026-01 (what you had was the download date), as the same format of the template. Also please note the - not _ in the version string.
3. Please run ln.track() by passing project as the template; it's important that all outputs are labeled with the project.
4. norway rat is missing from the new sources.

@ishitajain9717 I'll take care of this now so we can merge this PR. Also, a good PR title and description would be great 😊; I updated them.

[github-actions]

🚀 Deployed on https://69e63bf10ef76620fce439de--bionty-kyow.netlify.app

[sunnyosun]

@ishitajain9717 tests should go to test_protein.py, also you don't need to execute the function here.