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nextgenusfs avatar nextgenusfs commented on August 16, 2024

So this is from the 'need-curating.txt' file, correct? So you can modify these entries to something that would pass, i.e.

#Name	Original Description	Cleaned Description	Error-message
CTS2	Glycoside hydrolase protein  Cts2p	Product defline failed funannotate checks
MUC21	cell surface associated mucin 21 Muc21p	Product defline failed funannotate checks
SLC3A1	amino acid transport protein  Slc3a1p  Product defline failed funannotate checks

And then these curated models can get passed back to funannotate annotate

funannotate annotate -i folder --fix need-curating.txt

Any names/products that are not in the Genes2Products database then show up in the .new-names.passed.txt file in the annotate_results folder. That text file can be incorporated into the Genes2Products database by running the script in the forked Gene2Products repository. The resulting text file ncbi_cleaned_gene_products.txt can then be submitted as a PR.

update-gene2product.py Gene2Products.new-names-passed.txt

from gene2product.

hyphaltip avatar hyphaltip commented on August 16, 2024

This seems like it taken care of. it is ~4 years old issue I think we moved ahead in this time

from gene2product.

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