Add the canonical label and Biolink type to NameRes results about nameresolution HOT 4 CLOSED

I think it is being used to order the synonyms when they get grouped by curie. But I think if we put all the names in one document we wouldn't need to do that (and could therefore lose it). I think that it's worth giving this a shot and seeing whether it works or not.

from nameresolution.

Of course the downside here is that it makes the solr documents even that much bigger

from nameresolution.

The current docs look like this, I think:

{
  "curie": "CHEBI:74925",
  "length": 42,
  "id": 192534,
  "name": "beta-site APP-cleaving enzyme 1 inhibitors"
 },
 {
  "curie": "CHEBI:74925",
  "length": 22,
  "id": 192535,
  "name": "EC 3.4.23.46 inhibitor"
 },
 {
  "curie": "CHEBI:74925",
  "length": 23,
  "id": 192536,
  "name": "EC 3.4.23.46 inhibitors"
 },
 {
  "curie": "CHEBI:74925",
  "length": 36,
  "id": 192537,
  "name": "EC 3.4.23.46 (memapsin 2) inhibitors"
 },

If we need to add the type and preferred name to every element, then oof.

I wonder if we could transform the docs to something more like

{ 
  curie: ....
  names: [ "name1", "name2", "name3"]
  type: ""
  preferred name:
}

That way the percent diff of adding the new info is paid for in the reduction of curie repetition.

from nameresolution.

If we need to add the type and preferred name to every element, then oof.

The other option would be for NameRes to include a Redis table that has id to canonical name + biolink type mappings, but that would complicate the backend.

I wonder if we could transform the docs to something more like

I like this! NameRes is loaded from the synonym file, which is currently in the format:

id [tab] synonym type [tab] synonym

I think we if modify this to:

id [tab] biolink type [tab] canonical label [tab] synonym type [tab] synonym

We could use Solr updates to load it in the format you suggest. The synonym files would then get much larger, but the Solr database -- which is the piece we have to transfer from RENCI to ITRB -- might end up being smaller because it has fewer documents in it.

Is it okay to drop the length field? Is it currently being used?

from nameresolution.