Integrate GO-CAMs into search and pages (AmiGO)

kltm commented 1 year ago

Project link

https://github.com/orgs/geneontology/projects/TBD

Project description

The prerequisite for this project is #66, which adds pathway/GO-CAM widgets to AmiGO and adds a model "stub" page.

The purpose of this project is to "normalize" the GO-CAM experience in AmiGO along the same lines as what we have in there now; e.g. ontology terms, gene products, etc. For the end user experience, this largely means "search" and more detail and crosslinking.

Concrete goals would be along the lines of:

Create a basic python loader for GO-CAMs
- We'll likely have something that can be run after-the-fact and overlayed onto the already created GOlr index (as we're going to be re-using as much as possible that's already there at this point)
- May be multi-pass if we want to add info to term and GP docs
- This loader may form the foundation for the longer term loader rewrite with modern python tooling and practices, so should be in line with the over strategy
- This loader must be time conformant
- If this is not possible or we don't have time for this, a "good enough" loader can be used, but weight should be on an attempt to do it "right"
- Search on model metadata, model terms (closures), and gene products
Drive the /model pages off of this data
Activate search for this new data type following GOlr patterns
Make sure that available data is showing up on term, gp, and model pages

An alternate approach would be to break the GOlr patterns and do some or all of this by elaborating on the GO API. Counterargument would be that we'll still probably need to load into GOlr anyways to drive it and we want the data crossed without a complete rewrite (at this point anyways).

This will require a technical doc.

PI

Chris?

Product owner (PO)

Kimberly/David?

Technical lead (TL)

Patrick

Other personnel (OP)

Seth, Tremayne, Sierra

Technical specs

TBD (template: https://docs.google.com/document/d/111UqtS3G0aJZpAijZYI3Da0t94OQpGePlPJsqZE4Tio/edit)

Other comments

N/A

kltm commented 1 year ago

Noting that an example of the index that could be modified is at http://current.geneontology.org/products/solr/golr-index-contents.tgz

kltm commented 8 months ago

@pgaudet An illustration of things that could be fixed with this project https://github.com/geneontology/go-site/issues/2016

geneontology / project-management