kltm

Redo gulp build for noctua core clients

3

Over time, the original gulp build pipeline for noctua apps has accumulated a lot of cruft and special cases. We need to revisit the build pipeline, simplifying where we can...

Add GHA QC for subsets YAML schema

4

We now have a YAML for all subsets, (https://github.com/geneontology/go-ontology/blob/master/src/ontology/subsets/subsets.schema.yaml), but we need to add QC checking for this. From @cmungall , we can use linkml for this, and port it...

add actual gha check

2

for #27399

Change version of GPAD output from 1.2 to something else that's more appropriate

9

Currently, the GPAD output from minerva's gpad pipeline (that is technically publicly available in `products/upstream_and_raw_data`) looks like: ``` !gpa-version: 1.1 !collation date: 2024-07-03 !collated from production models in https://github.com/geneontology/noctua-models/ where...

Only add GAF col 17 output (isoform) when necessary

2

In the GAF 2.2 output, now that we've switched over to the new code, column 17 is being filled when not necessary (which is a little confusing and against the...

Ensure that GPAD (2.0) can be used as a primary input into the pipeline

16

As we move forward, with the active Noctua imports being the deadline, the pipeline needs to be able to process GPAD 2.0 as a primary input component (GAF being the...

Clean out remaining old goa references (e.g. rna, complex) now that we've switched to goa "plus" files

1

This is a follow-on from https://github.com/geneontology/go-site/issues/2214 Basically, in the main pipeline and in the NEO build, there are still from traces of the old metadata. While I don't think it's...

We should standardize on a single email address for documentation

2

In the GO documentation, we should standardize on a single email address (domain). The domain should always be listed as lists.stanford.edu.

Examine traffic (from the Alliance / AGR?) coming through the GO API

3

We'd like to understand better the large volume of traffic we're getting on the GOlr aux endpoint that can occasionally be disruptive. Looking at it, it would seem to be...

Clean up SynGO metadata and reimport into production and development branches of noctua-models

9

Currently, there are some SynGO models that use a "SYNGO" namespaced identifier for contributors. These models should be purged from our system by: - [ ] ensuring that all SynGO...