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geneontology / gocamgen

Base repo for constructing GO-CAM model RDF
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No extension is an island #78

Open ukemi opened 4 years ago

ukemi commented 4 years ago

Last Friday while browsing models from the legacy data load on development, we noticed that the model for MGI:98297 had a lot of nodes that represented cells and anatomical structures and appeared to not be connected to any other nodes of the graph. These types of node should only be from annotation extensions and should always have properties connecting them to 'core annotations'.

ukemi commented 4 years ago

Note @dustine32, the model is here: http://noctua-dev.berkeleybop.org/editor/graph/gomodel:ca36fa49-bf5d-4b2c-90b8-dd1b34014ae6

dustine32 commented 4 years ago

@ukemi Interesting. I'll try generating this gene's model through the newest code to see if this is still occurring. Thanks!

dustine32 commented 4 years ago

@ukemi Oh wow, we need a new load of models into noctua-dev. I'll start the run tomorrow but just keep yelling at me until it's done!

Looks like this has been handled (since the last load in late Sept 2019!) in the code: image http://68.181.46.18:8910/editor/graph/gomodel:885bcfca-fea7-4240-aee9-e028572b27b9

The GO_REL relation (GOREL:0001002) is even used now.

ukemi commented 4 years ago

Ah. Ok @dustine32 this makes sense to me. Sorry, I wasn't aware of the status on noctua-dev and I thought that when I checked before, things all looked ok. I won't yell, but I may bug you now and then. :)