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geneontology / noctua

Graph-based modeling environment for biology, including prototype editor and services
http://noctua.geneontology.org/
BSD 3-Clause "New" or "Revised" License
37 stars 13 forks source link

Cannot import existing MF annotation #897

Open ValWood opened 3 months ago

ValWood commented 3 months ago

instead of https://github.com/geneontology/noctua/issues/896 as a 'stop gap' I tried instead to use the rpb1 unmodified form where I could see the annotation)

Screenshot 2024-06-18 at 17 52 47

However, the MF did not display (ideally the BP and CC associated with this annotation would also be imported)

ValWood commented 3 months ago

This seems to be a general issue. I can't import the annotation in this model

http://noctua.geneontology.org/workbench/noctua-visual-pathway-editor/?model_id=gomodel%3A662af8fa00000408

coq10 I can see the MF annotation, and select it, but it never appears in the model. This annotation also has an extension (incorrect, will fix), maybe it's annotations with extensions that cannot be imported?

Screenshot 2024-06-18 at 18 29 53
ValWood commented 3 months ago

I'm pretty sure it's the extensions. same issue in http://noctua.geneontology.org/workbench/noctua-visual-pathway-editor/?model_id=gomodel%3A662af8fa00000408

importing the MF for azr1

Screenshot 2024-06-19 at 08 03 24
ValWood commented 3 months ago

Also, if you annotate the root node molecular functions are not available for import. You have no choice but to add these manually. When you do this, you are not able to search for existing annotations for BP and CC, you ned to add them again (time consuming and will cause duplicate annotations)